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https://github.com/protofilamentdude/Protofilament-Bending-Models
Code is written to be run with Matlab version r2020b or higher. Model accepts wave assay pulse amplitude data, and simultaneously solves and fits protofilament deflection models to deduce fundamental biophysical properties of microtubule protofilaments.
Proper citation: Protofilament Bending Models (RRID:SCR_023062) Copy
https://github.com/GuyButcher/alpha-helix-coordinate-frame-simulation
Source code for alpha-helix simulation framework written in Matlab. Specifically tested on Talin-1 Rod Domain.
Proper citation: alpha helix coordinate frame simulation (RRID:SCR_019320) Copy
https://github.com/missy139/PreSurgMapp
A MATLAB toolbox for processing the functional areas of the brain using multi-modal fMRI data for pre-surgical mapping. It is composed of three types of individual-level ICA analyses for user use. Traditional ICA (task) can be used for task fMRI. Either Traditional ICA (rest) or ICA with DICI (rest) can be used for rs-fMRI. Traditional ICA (rest) is designed for users who already have a hypothesis of the pattern of the target component and want to have manually set components by themselves. ICA with DICI (rest) is completely automatic, given that the user provides a template (provided). The software utilizes an automatic component identification method that is based on the discriminatory-index. All the components from multiple ICA runs with multiple component settings are ranked and compiled.
Proper citation: PreSurgMapp (RRID:SCR_014427) Copy
https://neurophysics.ucsd.edu/software.php
Matlab-based routines for the detection and clustering of putative single units from a multi-unit time series, along with quality metrics. This sofwtare was developed by the David Kleinfeld Laboratory at UC San Diego.
Proper citation: UltraMegaSort 2000 (RRID:SCR_015857) Copy
http://users.sussex.ac.uk/~lionelb/MVGC/
Matlab software toolkit designed to facilitate Granger-causal analysis with multivariate and possibly multi-trial time series data. Annotated demonstration scripts are available which may be used as templates to assist in this the toolbox's functions.
Proper citation: MVGC Multivariate Granger Causality Matlab Toolbox (RRID:SCR_015755) Copy
http://download.ant-neuro.com/matlab/
Software as an EEGLAB tool used for LIBEEP recordings.
Proper citation: Libeep EEGLAB plugin (RRID:SCR_016334) Copy
http://cns.hkbu.edu.hk/RIDE.htm
Software Matlab based toolbox for temporal decomposition of EEG signal. Used for decomposition, reconstruction, and single trial analysis of event related potentials.
Proper citation: Residue Iteration Decomposition (RRID:SCR_022174) Copy
https://github.com/MMTI/Toolkit_for_MIRA_LAB_Striatal_Segmentation
Software MATLAB pipeline that produces CNN-based segmentations of striatal regions of brain based on structural T1w image.
Proper citation: Toolkit for MIRA LAB Striatal Segmentation (RRID:SCR_023073) Copy
https://github.com/KatrinSkerl/EvaluateMuscleTissueWithElastography/tree/main
Software tool that enables the automatic evaluation of muscle tissue on elastography imaging using MATLAB.
Proper citation: EvaluateMuscleTissueWithElastography (RRID:SCR_026737) Copy
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