jkim0731 Goto Github PK

allensdk

code for reading and processing Allen Institute for Brain Science data

analysis_angle_coding_in_vs1

Analysis codes for "angle coding in vS1" paper. All in MATLAB

angle-discrimination-behavior

Scripts for characterizing behavior in novel angle discrimination task for Kim et al., 2020

ca_source_extraction

Matlab implementation of a source extraction and spike inference algorithm for large scale calcium imaging data analysis, based on a constrained matrix factorization approach.

calciumsignalextract

Extract regions of interest based on correlated pixel intensity

casignal

calcium signal analysis

constrained-foopsi

Implementation of the constrained deconvolution spike inference algorithm in Matlab

continuous_time_ca_sampler

The code takes as an input a time series vector of calcium observationsand produces samples from the posterior distribution of the underlying spike in continuous time.

experporthlabtrainingboxes

Behavior protocols and analysis

gitexample

gitgoing

Get going with contributing to open source software

jkarduino

arduino codes for behaviors and light control

jkisi

HLab ISI

jkrtwt

codes for real-time whisker tracker

jksbx

supplementary files for scanbox by jkim

jksolo

behavior running & analysis

jksuite2p_match_all_sessions

Using suite2p to match all sessions from the same imaging plane

jktools

miscellaneous tools downloaded and made

jkwhisker

HLab whisker analysis

neural-stretching-in-vs1

Analysis codes for ensemble activity change in vS1 across angle discrimination learning

oopsi

up-to-date code for model-based inference of spike trains from calcium imaging

pub_s1anglecode

roi_detect

Automatic ROI Detection

scikit-learn

scikit-learn: machine learning in Python

session-matching-2p

conversion of 2p images for session matching project

spgl1

A solver for large-scale sparse reconstruction

suite2p

cell detection in calcium imaging recordings

test

test

tools

useful-matlab-functions

A collection of useful Matlab functions that are useful for most situations. Keep these on your path