brainstorm3

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small fixes for head points

10

Found some old .pos files with head points labeled 'EXTRA' instead of indexed. They were misclassified as 'CARDINAL'. This fixes it. Also changed the head point display to color code...

Moo-Marc

Global PCA for scouts and/or unconstrained sources

6

**Description** This PR implements computing PCA across all files/epochs at once ("global pca") instead of separately for each file ("per-trial PCA"). It applies to extracting scout time-series, either through process_extract_scout...

Moo-Marc

Hilbert transform in the frequency domain

1

This modification does a zero phase filtering (equivalent of matlab `filtfilt.m` and then performs Hilbert transform in the frequency domain), using some code provided by Ricardo Bruña. In my opinion...

danielemarinazzo

Forum questions waiting for an answer

2

Apr 2023: * https://neuroimage.usc.edu/forums/t/the-way-to-conduct-wpli-for-unconstrained-source-maps/39512/2 Feb 2023: * https://neuroimage.usc.edu/forums/t/interpreting-amplitude-envelope-correlation-aec-values/37762 * https://neuroimage.usc.edu/forums/t/wpli-and-connectivity-metrics-validity-publishability/38842/3 * https://neuroimage.usc.edu/forums/t/eeg-model-evaluation-results/38876 July 2022: * https://neuroimage.usc.edu/forums/t/henv-error-when-using-new-aec-function-2022/36042 => Disable split option? June 2022: * https://neuroimage.usc.edu/forums/t/envelope-correlation-n-x-n-2020-dimensions-of-arrays-being-concatenated-are-not-consistent/30358/21 * https://neuroimage.usc.edu/forums/t/hilbert-envelope-correlation-about-assuming-measures-positive-in-bst-henv-m/35572/1 May 2022: * https://neuroimage.usc.edu/forums/t/error-refining-fem-mesh-using-iso2mesh-2021/35305...

ftadel

Group analysis: recommended workflow and statistics

5

The pipeline currently described on the website is not giving acceptable results, and we could not publish any statistics at the group level in the recent Frontiers article. This needs...

ftadel

Update BIDS dataset for OMEGA tutorial

1

There are many issues with the current dataset that we use for the OMEGA tutorial. ### Changes to the BIDS dataset - /derivatives/freesurfer: - Move the FreeSurfer folders to follow...

ftadel

PAC: Using old bandpass filter?

8

bst_pac.m uses bst_bandpass_fft.m, which is not used anywhere anymore... And it uses a signal mirroring, which has proven not to help much reducing the duration of the edge effects. @SoheilaSamiee...

ftadel

FEM tutorial: Issues to fix

31

1) **SimNIBS**: Remeshing the SimNIBS model with iso2mesh doesn't work. Here is the error message: ``` FEM> 1. scalp: C:\Work\Protocols\TutorialFem\anat\Subject01\tess_scalp.mat FEM> 2. skull: C:\Work\Protocols\TutorialFem\anat\Subject01\tess_skull.mat FEM> 3. white: C:\Work\Protocols\TutorialFem\anat\Subject01\tess_white.mat FEM> 4....

ftadel

IO: Add support for reading XDF files

5

Fieldtrip already supports it. Sylvain will contact collaborators for example files.

martcous

Leff ratio in dipole scanning and whitened recordings

6

@jcmosher suggested we change the scaling factor applied in two functions: **1. Dipole scanning (not implemented)** https://github.com/brainstorm-tools/brainstorm3/blob/master/toolbox/process/functions/process_dipole_scanning.m#L124 `Factor = sqrt(DataMatP.Leff / sResultP.Leff);` Replaced with: `Factor = sqrt(sResultP.Leff);` Problem: When testing...

ftadel