Note
Go to the end to download the full example code. or to run this example in your browser via Binder
NeuroVault cross-study ICA maps¶
This example shows how to download statistical maps from NeuroVault, label them with NeuroSynth terms, and compute ICA components across all the maps.
See fetch_neurovault
documentation for more details.
import numpy as np
from scipy import stats
from sklearn.decomposition import FastICA
from nilearn.datasets import fetch_neurovault, load_mni152_brain_mask
from nilearn.image import smooth_img
from nilearn.maskers import NiftiMasker
from nilearn.plotting import plot_stat_map, show
Get image and term data¶
# Download images
# Here by default we only download 80 images to save time,
# but for better results I recommend using at least 200.
print(
"Fetching Neurovault images; "
"if you haven't downloaded any Neurovault data before "
"this will take several minutes."
)
nv_data = fetch_neurovault(
max_images=30, fetch_neurosynth_words=True, timeout=30.0
)
images = nv_data["images"]
term_weights = nv_data["word_frequencies"]
vocabulary = nv_data["vocabulary"]
if term_weights is None:
term_weights = np.ones((len(images), 2))
vocabulary = np.asarray(["Neurosynth is down", "Please try again later"])
# Clean and report term scores
term_weights[term_weights < 0] = 0
total_scores = np.mean(term_weights, axis=0)
print("\nTop 10 neurosynth terms from downloaded images:\n")
for term_idx in np.argsort(total_scores)[-10:][::-1]:
print(vocabulary[term_idx])
Fetching Neurovault images; if you haven't downloaded any Neurovault data before this will take several minutes.
[fetch_neurovault] Dataset directory found: /home/runner/nilearn_data/neurovault
[fetch_neurovault] Reading local neurovault data.
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=32980
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1952/neurosynth_words_for_image_32980.json
[fetch_neurovault] Already fetched 1 image
[fetch_neurovault] 1 image found on local disk.
[fetch_neurovault] Reading server neurovault data.
[fetch_neurovault] Scroll collections: getting new batch:
https://neurovault.org/api/collections/?limit=100&offset=0
[fetch_neurovault] Could not get batch from
https://neurovault.org/api/collections/?limit=100&offset=0.
Timeout error with timeout=30.0 seconds.
Try increasing 'timeout' value.
[fetch_neurovault] Scroll collections: getting new batch:
https://neurovault.org/api/collections/?limit=100&offset=0
[fetch_neurovault] Scroll collections: batch size: 100
[fetch_neurovault] Scroll images from collection 921: getting new batch:
https://neurovault.org/api/collections/921/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 921: batch size: 1
[fetch_neurovault] On neurovault.org: no image matched query in collection 921
[fetch_neurovault] Scroll images from collection 440: getting new batch:
https://neurovault.org/api/collections/440/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 440: batch size: 2
[fetch_neurovault] On neurovault.org: no image matched query in collection 440
[fetch_neurovault] Scroll images from collection 496: getting new batch:
https://neurovault.org/api/collections/496/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 496: batch size: 1
[fetch_neurovault] On neurovault.org: no image matched query in collection 496
[fetch_neurovault] Scroll images from collection 4008: getting new batch:
https://neurovault.org/api/collections/4008/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 4008: batch size: 1
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/4008/spmT_0001.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_4008/image_65426.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=65426
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_4008/neurosynth_words_for_image_65426.json
[fetch_neurovault] Already fetched 2 images
[fetch_neurovault] On neurovault.org: 1 image matched query in collection 4008
[fetch_neurovault] Scroll images from collection 4: getting new batch:
https://neurovault.org/api/collections/4/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 4: batch size: 1
[fetch_neurovault] On neurovault.org: no image matched query in collection 4
[fetch_neurovault] Scroll images from collection 79: getting new batch:
https://neurovault.org/api/collections/79/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 79: batch size: 5
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/79/neurosynth_spectral_01.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_79/image_11020.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=11020
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_79/neurosynth_words_for_image_11020.json
[fetch_neurovault] Already fetched 3 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/79/neurosynth_spectral_01_1.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_79/image_11021.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=11021
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_79/neurosynth_words_for_image_11021.json
[fetch_neurovault] Already fetched 4 images
[fetch_neurovault] On neurovault.org: 2 images matched query in collection 79
[fetch_neurovault] Scroll images from collection 1257: getting new batch:
https://neurovault.org/api/collections/1257/images/?limit=100&offset=0
[fetch_neurovault] Scroll images from collection 1257: batch size: 100
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/abstract_knowledge_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17327.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17327
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17327.json
[fetch_neurovault] Already fetched 5 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/acoustic_processing_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17328.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17328
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17328.json
[fetch_neurovault] Already fetched 6 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/action_perception_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17329.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17329
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17329.json
[fetch_neurovault] Already fetched 7 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/action_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17330.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17330
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17330.json
[fetch_neurovault] Already fetched 8 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/activation_level_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17331.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17331
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17331.json
[fetch_neurovault] Already fetched 9 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/activation_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17332.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17332
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17332.json
[fetch_neurovault] Already fetched 10 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/active_maintenance_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17333.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17333
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17333.json
[fetch_neurovault] Already fetched 11 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/active_retrieval_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17334.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17334
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17334.json
[fetch_neurovault] Already fetched 12 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/acuity_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17335.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17335
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17335.json
[fetch_neurovault] Already fetched 13 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/adaptation_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17336.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17336
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17336.json
[fetch_neurovault] Already fetched 14 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/adaptive_control_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17337.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17337
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17337.json
[fetch_neurovault] Already fetched 15 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/addiction_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17338.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17338
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17338.json
[fetch_neurovault] Already fetched 16 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/affect_perception_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17339.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17339
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17339.json
[fetch_neurovault] Already fetched 17 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/affect_recognition_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17340.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17340
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17340.json
[fetch_neurovault] Already fetched 18 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/agency_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17341.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17341
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17341.json
[fetch_neurovault] Already fetched 19 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/agreeableness_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17342.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17342
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17342.json
[fetch_neurovault] Already fetched 20 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/altruism_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17343.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17343
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17343.json
[fetch_neurovault] Already fetched 21 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/altruistic_motivation_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17344.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17344
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17344.json
[fetch_neurovault] Already fetched 22 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/alveolar_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17345.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17345
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17345.json
[fetch_neurovault] Already fetched 23 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/amodal_representation_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17346.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17346
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17346.json
[fetch_neurovault] Already fetched 24 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/analogical_reasoning_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17347.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17347
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17347.json
[fetch_neurovault] Already fetched 25 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/analogy_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17348.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17348
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17348.json
[fetch_neurovault] Already fetched 26 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/anchoring_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17349.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17349
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17349.json
[fetch_neurovault] Already fetched 27 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/anhedonia_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17350.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17350
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17350.json
[fetch_neurovault] Already fetched 28 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/animacy_decision_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17351.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17351
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17351.json
[fetch_neurovault] Already fetched 29 images
[fetch_neurovault] Downloading file:
http://neurovault.org/media/images/1257/animacy_perception_regparam.nii.gz
[fetch_neurovault] Download succeeded, downloaded to:
/home/runner/nilearn_data/neurovault/collection_1257/image_17352.nii.gz
[fetch_neurovault] Downloading file:
https://neurosynth.org/api/decode/?neurovault=17352
[fetch_neurovault] Download succeeded, downloaded to: /home/runner/nilearn_data/
neurovault/collection_1257/neurosynth_words_for_image_17352.json
[fetch_neurovault] Already fetched 30 images
[fetch_neurovault] Computing word features.
[fetch_neurovault] Computing word features done; vocabulary size: 1315
Top 10 neurosynth terms from downloaded images:
parietal
motor
premotor
tasks
movements
intraparietal
task
intraparietal sulcus
premotor cortex
phonological
Reshape and mask images¶
import warnings
print("\nReshaping and masking images.\n")
mask_img = load_mni152_brain_mask(resolution=2)
masker = NiftiMasker(
mask_img=mask_img, memory="nilearn_cache", memory_level=1, verbose=1
)
masker = masker.fit()
# Images may fail to be transformed, and are of different shapes,
# so we need to transform one-by-one and keep track of failures.
X = []
is_usable = np.ones((len(images),), dtype=bool)
for index, image_path in enumerate(images):
# load image and remove nan and inf values.
# applying smooth_img to an image with fwhm=None simply cleans up
# non-finite values but otherwise doesn't modify the image.
image = smooth_img(image_path, fwhm=None)
try:
with warnings.catch_warnings():
warnings.simplefilter("ignore")
X.append(masker.transform(image))
except Exception as e:
meta = nv_data["images_meta"][index]
print(
f"Failed to mask/reshape image: id: {meta.get('id')}; "
f"name: '{meta.get('name')}'; "
f"collection: {meta.get('collection_id')}; error: {e}"
)
is_usable[index] = False
# Now reshape list into 2D matrix, and remove failed images from terms
X = np.vstack(X)
term_weights = term_weights[is_usable, :]
Reshaping and masking images.
\[NiftiMasker.fit] Loading mask from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe809a0>
\[NiftiMasker.fit] Resampling mask
________________________________________________________________________________
[Memory] Calling nilearn.image.resampling.resample_img...
resample_img(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, target_affine=None, target_shape=None, copy=False, interpolation='nearest')
_____________________________________________________resample_img - 0.0s, 0.0min
\[NiftiMasker.fit] Finished fit
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe823e0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe836d0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.3s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe83df0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff85180>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.3s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff845b0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff86b90>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.3s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe83550>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe83df0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff87250>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff873d0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff84a90>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe807f0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff85000>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff85b70>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff85a50>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff87700>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe81420>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff872e0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff85b70>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff87af0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe81420>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe82980>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff865c0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff84880>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe805e0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe831c0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff85c30>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff844f0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff84cd0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff86950>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe83550>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe822f0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff84a30>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cf1602740>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe822f0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe82980>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff86380>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff87d00>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe82980>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe805e0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff85d20>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff84520>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9ce72b76a0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9ce72b7010>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe83670>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff84520>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9ce72b6410>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9ce72b54b0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cffe805e0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff84520>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9ce72b4a30>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9ce72b79a0>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9cfff84520>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cfff87c40>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9ce72b50f0>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9ce72b4a90>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
________________________________________________________________________________
[Memory] Calling nilearn.maskers.nifti_masker.filter_and_mask...
filter_and_mask(<nibabel.nifti1.Nifti1Image object at 0x7f9ce72b5840>, <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>, { 'clean_args': None,
'clean_kwargs': {},
'cmap': 'gray',
'detrend': False,
'dtype': None,
'high_pass': None,
'high_variance_confounds': False,
'low_pass': None,
'reports': True,
'runs': None,
'smoothing_fwhm': None,
'standardize': False,
'standardize_confounds': True,
't_r': None,
'target_affine': None,
'target_shape': None}, memory_level=1, memory=Memory(location=nilearn_cache/joblib), verbose=1, confounds=None, sample_mask=None, copy=True, sklearn_output_config=None)
\[NiftiMasker.wrapped] Loading data from <nibabel.nifti1.Nifti1Image object at
0x7f9cffe80040>
\[NiftiMasker.wrapped] Resampling images
\[NiftiMasker.wrapped] Extracting region signals
\[NiftiMasker.wrapped] Cleaning extracted signals
__________________________________________________filter_and_mask - 0.2s, 0.0min
Run ICA and map components to terms¶
print("Running ICA; may take time...")
# We use a very small number of components as we have downloaded only 80
# images. For better results, increase the number of images downloaded
# and the number of components
n_components = 8
fast_ica = FastICA(n_components=n_components, random_state=0)
ica_maps = fast_ica.fit_transform(X.T).T
term_weights_for_components = np.dot(fast_ica.components_, term_weights)
print("Done, plotting results.")
Running ICA; may take time...
Done, plotting results.
Generate figures¶
for index, (ic_map, ic_terms) in enumerate(
zip(ica_maps, term_weights_for_components, strict=False)
):
if -ic_map.min() > ic_map.max():
# Flip the map's sign for prettiness
ic_map = -ic_map
ic_terms = -ic_terms
ic_threshold = stats.scoreatpercentile(np.abs(ic_map), 90)
ic_img = masker.inverse_transform(ic_map)
important_terms = vocabulary[np.argsort(ic_terms)[-3:]]
title = f"IC{int(index)} {', '.join(important_terms[::-1])}"
plot_stat_map(ic_img, threshold=ic_threshold, colorbar=False, title=title)
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([ 0.446254, ..., -0.116826]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.1s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([0.003794, ..., 0.138935]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([-0.943755, ..., -1.277218]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([-0.013288, ..., -0.005942]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([-0.041787, ..., -0.324892]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([-0.18023 , ..., 0.289596]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([-0.265301, ..., -0.290405]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
\[NiftiMasker.inverse_transform] Computing image from signals
________________________________________________________________________________
[Memory] Calling nilearn.masking.unmask...
unmask(array([0.024094, ..., 0.014214]), <nibabel.nifti1.Nifti1Image object at 0x7f9cffe82da0>)
___________________________________________________________unmask - 0.0s, 0.0min
As we can see, some of the components capture cognitive or neurological maps, while other capture noise in the database. More data, better filtering, and better cognitive labels would give better maps
# Done.
show()
Total running time of the script: (1 minutes 22.129 seconds)
Estimated memory usage: 215 MB
