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Sara's Projects

allenccf icon allenccf

Tools to work with Allen Inst CCF data in matlab

asr icon asr

Adaptive spike removal from LFP

buzcode icon buzcode

Code for internal lab sharing - polishing has started but is by no means complete

cellexplorer icon cellexplorer

CellExplorer is a graphical user interface (GUI) and standardized pipeline for exploring and characterizing single cells acquired with extracellular electrodes

cellseg3d icon cellseg3d

a napari plug-in for direct 3D cell segmentation on cleared tissue -- taking you through training, inference, and review of masks

coniii icon coniii

Convenient Interface to Inverse Ising

fieldtrip icon fieldtrip

The MATLAB toolbox for MEG and EEG analysis

files icon files

Content of files.software-carpentry.org

hamiltonian-annealed-importance-sampling icon hamiltonian-annealed-importance-sampling

Matlab code implementing Hamiltonian Annealed Importance Sampling for importance weight, partition function, and log likelihood estimation for models with continuous state spaces

ipn-kilosort icon ipn-kilosort

Kilosort scripts for the IPN workshop on extracellular recording

ising-model icon ising-model

Fit an Ising model with neural spike train data using Minimum Probability Flow Learning. Based on code from Jascha Sohl-Dickstein.

kilosort icon kilosort

Fast spike sorting with drift correction for up to a thousand channels

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