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actogrammr

read activity data and plot actograms

autotyping

Automated phenotyping of mouse behavior

calciumsim

Simulation of Calcium Imaging Data

carma-imaging

cnmf_e

Constrained Nonnegative Matrix Factorization for microEndoscopic data

course_rna-seq2019

deeplabcut

Markerless pose estimation of user-defined features with deep learning for all animals, including humans

development

easeq-fish

A integrated analysis toolbox for 3D spatial transcriptome, enables highly accurate 3D registration for large volume images, and provides barcoding and decoding analysis for spatial transcriptome of thick tissue.

ephystoolbox

Like any toolbox, these files are multipurpose, and don't change often.

facemap

matlab/python GUI for unsupervised video analysis of rodent behavior (capable of processing multiple camera views)

flexdrive

Compact hyperdrive for up to 16 independently movable electrodes

github.com

In search of need gate-keeper

gramm

Gramm is a complete data visualization toolbox for Matlab. It provides an easy to use and high-level interface to produce publication-quality plots of complex data with varied statistical visualizations. Gramm is inspired by R's ggplot2 library.

graphics_utilities

general matlab graphics routines

groundswell

A Matlab application for browsing and analysis of electrophysiology data.

histology

jsonlab

JSONlab: a toolbox to encode/decode JSON files in MATLAB/Octave

lantern

Lantern官方版本下载 蓝灯 翻墙 代理 科学上网 外网 加速器 梯子 路由 lantern proxy vpn censorship-circumvention censorship gfw accelerator

mousevideo-analysis

Video analysis of behaving mice using python and openCV

multifish

EASI-FISH analysis pipeline for spatial transcriptomics

muse

Code for localization of mouse ultrasonic vocalizations using a microphone array

neuraldatasciencecshl2019

Coding exercises for Neural Data Science at CSHL in 2019

pybdv

python tools for BigDataViewer

rfid_library

125Khz RFID library for Arduino

simba

SimBA (Simple Behavioral Analysis), a plug-and-play pipeline and GUI for developing supervised behavioral classifiers

skilledreaching

Image analysis to identify rat paws in motion capture.

spoke

Live display of neural spike data for SpikeGLX software

sr_methods_paper

m-files to create figures for the first automated skilled reaching methods paper

switchhosts

Switch hosts quickly!