Leifer Lab @ Princeton University's repositories
savitzkygolay
Savitzky-Golay filters
NeRVEclustering
Code accompanying Nguyen JP, Linder AN, Plummer GS, Shaevitz JW, Leifer AM (2017) Automatically tracking neurons in a moving and deforming brain. PLoS Comput Biol 13(5): e1005517.
mindcontrol
Closed-loop computer vision software to track and deliver patterned illumination to freely moving C. elegans as part of the CoLBeRT instrument.
liu-temporal-processing
Source code associated with Liu et al "Temporal processing and context dependency in C. elegans response to mechanosensation"
pump-probe-acquisition
Francesco's LabView code for pump-probe experiments. www.github.com/leiferlab/pump-probe-acquisition#francescos-labview-code README at the bottom of the long list of files, which are actually well organized in the LabView project pump-probe.lvproj
testPoisson
Matlab implementation of E-test for comparing poisson means. Based on Krishnamoorthy, K and Thomson, J. (2004)
WholeBrainImagingSuite
Collection of software components used in Nguyen et al 2015
internal.mindcontrolAPI
Interprocess C API / DLL for getting data in and out of the mindcontrol application in realtime.
leiferlab.princeton.edu
Lab homepage
matlab-base-utils
Library of useful Matlab Utilities
PredictionCode
This repository contains code and visualizations needed to reproduce the results presented in Hallinen et al, "Decoding locomotion from population neural activity in moving C. elegans," eLife, 2021.
wormdatamodel
Data model for whole brain recordings
gmmreg
Implementations of the robust point set registration algorithm described in the paper "Robust Point Set Registration Using Gaussian Mixture Models", Bing Jian and Baba C. Vemuri, IEEE Transactions on Pattern Analysis and Machine Intelligence, 2011, 33(8), pp. 1633-1645.
HighMagNeuron
Xinwei's pipeline for high mag neuron segmentation
InterProcess
A compact C library to share data between processes on Windows. Fast. Simple
kunertPRE2014
Reproducing the calculations in Kunert et al., PRE 89 052805 (2014)
MindControlAccessUtils
MATLAB scripts to read in YAML output created by MindControl software.
OSAanalysis
analysis for OSA recordings
spontdyn
Data analysis for Gauthey et al. 2024.
TrackFeatureGUI
MATLAB GUI for tracking features in images, such as neurons.
wormneuronsegmentation-c
Optimized code for neuron finding and pseudo-segmentation