Parcellation plot issue #127
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…d affines in icp_with_full_transform
…ficients for IQR-based thresholding
…n_correct_X to motion_correct.X - made arguments PEP8 compliant - fixed a bug in the stopping criterion of motion_correct.pca_recurse - added quality.mask_to_segments
the tsv file was written into the local instead of the temporary directory
* Added example notebook for ICA ERBM * integrate ICA-ERBM example into docs * update changelog --------- Co-authored-by: Jacky Behrendt <[email protected]> Co-authored-by: Eike Middell <[email protected]>
* Update plots.py * Update plots.py * Update plots.py default is none
update repair amp to fill first value of the timeseries to the second if first value is nan. This avoids a sudden jump from zero to the second value, which interpolation does not capture
Fixed an issue with constant regressors when fitting a GLM using the AR-IRLS method. The autoregressive filter used to account for serial correlations was not properly applied to them. The fix ignores samples at the beginning of the time series until the filter is initialized.
- corrected outdated explainations - added a plot to visulize the selected parcels
* modify filenames to follow bid convention and create necessary metadata * add doc strings and a notebook example * add documentation * fix bugs and add more explanations * add snirf2bids to requirements * bug fix * bug fix * return snirf2bids mapping path instead of the pandas dataframe * set extra_extra_meta_data_path to None if it doesn't exist * search for acq_time in snirf files * clear outputs * clear outputs * clear outputs * correct a typo * remove scripts * fix a bug in editing _events.tsv and sort onset times * add a separate function for sorting events based on onset time * Support using user-provided participants.tsv/json files or custom participant fields for creation * trim datetime miliseconds info in acq_time * convert Path object to str for checking the file format * add support for xlsx files * Update snirf2bids.ipynb Clean up markups, moving cells, code change, all super minor. * handle null sessions * handle null sessions * add the running in colab cell * retrieve snirf2bids from interim repository --------- Co-authored-by: Shakiba Moradi <[email protected]> Co-authored-by: Shakiba Moradi <[email protected]> Co-authored-by: Meryem Ayse Yucel <[email protected]> Co-authored-by: Eike Middell <[email protected]>
added a demo mode to snirf2bids notebook that uses an example notebook
…tation pipeline (#124)
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I change the plotting section according to what Eike is using for the image recon.