Download the data set

Download the data set#

In this script, we download the data set from Wasabi or GIN. No account is required.

Cite this data set#

This tutorial is based on publicly available data published on GIN. If you publish any work using this data set, please cite the original publication [1], and the data set [2].

Download#

# path of the data directory
from voxelwise_tutorials.io import get_data_home
directory = get_data_home(dataset="shortclips")
print(directory)

/home/jlg/yuerou/voxelwise_tutorials_data/shortclips

We will only use the first subject in this tutorial, but you can run the same analysis on the four other subjects. Uncomment the lines in DATAFILES to download more subjects.

We also skip the stimuli files, since the dataset provides two preprocessed feature spaces to perform voxelwise modeling without requiring the original stimuli.

from voxelwise_tutorials.io import download_datalad

DATAFILES = [
    "features/motion_energy.hdf",
    "features/wordnet.hdf",
    "mappers/S01_mappers.hdf",
    # "mappers/S02_mappers.hdf",
    # "mappers/S03_mappers.hdf",
    # "mappers/S04_mappers.hdf",
    # "mappers/S05_mappers.hdf",
    "responses/S01_responses.hdf",
    # "responses/S02_responses.hdf",
    # "responses/S03_responses.hdf",
    # "responses/S04_responses.hdf",
    # "responses/S05_responses.hdf",
    # "stimuli/test.hdf",
    # "stimuli/train_00.hdf",
    # "stimuli/train_01.hdf",
    # "stimuli/train_02.hdf",
    # "stimuli/train_03.hdf",
    # "stimuli/train_04.hdf",
    # "stimuli/train_05.hdf",
    # "stimuli/train_06.hdf",
    # "stimuli/train_07.hdf",
    # "stimuli/train_08.hdf",
    # "stimuli/train_09.hdf",
    # "stimuli/train_10.hdf",
    # "stimuli/train_11.hdf",
]

source = "https://gin.g-node.org/gallantlab/shortclips"

for datafile in DATAFILES:
    local_filename = download_datalad(datafile, destination=directory,
                                      source=source)

[INFO] Attempting a clone into /home/jlg/yuerou/voxelwise_tutorials_data/shortclips 
[INFO] Attempting to clone from https://gin.g-node.org/gallantlab/shortclips to /home/jlg/yuerou/voxelwise_tutorials_data/shortclips 
[INFO] Start enumerating objects 
[INFO] Start counting objects 
[INFO] Start compressing objects 
[INFO] Start receiving objects 
[INFO] Start resolving deltas 
[INFO] Completed clone attempts for Dataset(/home/jlg/yuerou/voxelwise_tutorials_data/shortclips) 
[INFO] access to 1 dataset sibling gin-src not auto-enabled, enable with:
| 		datalad siblings -d "/home/jlg/yuerou/voxelwise_tutorials_data/shortclips" enable -s gin-src 

install(ok): /home/jlg/yuerou/voxelwise_tutorials_data/shortclips (dataset)
get(ok): features/motion_energy.hdf (file) [from wasabi...]
get(ok): features/wordnet.hdf (file) [from wasabi...]
get(ok): mappers/S01_mappers.hdf (file) [from wasabi...]
get(ok): responses/S01_responses.hdf (file) [from wasabi...]

References#

[1] Huth, A. G., Nishimoto, S., Vu, A. T., & Gallant, J. L. (2012). A continuous semantic space describes the representation of thousands of object and action categories across the human brain. Neuron, 76(6), 1210-1224.

[2] Huth, A. G., Nishimoto, S., Vu, A. T., Dupré la Tour, T., & Gallant, J. L. (2022). Gallant Lab Natural Short Clips 3T fMRI Data. http://dx.doi.org/10.12751/g-node.vy1zjd

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