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@leiferlab Leifer Lab @ Princeton University

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    31 repositories

    • leiferlab.princeton.edu

      Public
      Lab homepage
      HTML
      •1•1•0•1•Updated Dec 23, 2024Dec 23, 2024

    • kumar-molecular-mechanism

      Public
      LabVIEW
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 9, 2024Aug 9, 2024

    • wormdatamodel

      Public
      Data model for whole brain recordings
      Python
      •
      GNU General Public License v3.0
      •4•2•0•1•Updated May 13, 2024May 13, 2024

    • HighMagNeuron

      Public
      Xinwei's pipeline for high mag neuron segmentation
      Python
      •0•0•2•0•Updated Apr 23, 2024Apr 23, 2024

    • CenterlineTracking

      Public
      MATLAB
      •2•2•0•0•Updated Apr 18, 2024Apr 18, 2024

    • spontdyn

      Public
      Data analysis for Gauthey et al. 2024.
      Python
      •0•0•0•0•Updated Jan 10, 2024Jan 10, 2024

    • pumpprobe

      Public
      Signal propagation atlas libraries, Randi et al. 2022
      Python
      •
      GNU General Public License v3.0
      •2•4•1•0•Updated Sep 20, 2023Sep 20, 2023

    • wormbrain

      Public
      Handling of small brains
      Python
      •
      GNU General Public License v3.0
      •2•2•0•0•Updated Aug 16, 2023Aug 16, 2023

    • pump-probe-acquisition

      Public
      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
      LabVIEW
      •1•2•0•0•Updated Aug 14, 2023Aug 14, 2023

    • wormneuronsegmentation-c

      Public
      Optimized code for neuron finding and pseudo-segmentation
      C++
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 14, 2023Aug 14, 2023

    • kumar-sensorimotor-integration

      Public
      LabVIEW
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 8, 2023Aug 8, 2023

    • worm-functional-connectivity

      Public
      Python
      •7•4•2•0•Updated Jul 7, 2023Jul 7, 2023

    • kunertPRE2014

      Public
      Reproducing the calculations in Kunert et al., PRE 89 052805 (2014)
      Python
      •0•0•0•0•Updated May 15, 2023May 15, 2023

    • savitzkygolay

      Public
      Savitzky-Golay filters
      Python
      •7•16•3•0•Updated May 12, 2023May 12, 2023

    • analysis-code-kumar-2022

      Public
      LabVIEW
      •0•0•0•0•Updated Dec 8, 2022Dec 8, 2022

    • liu-closed-loop-code

      Public
      MATLAB
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Sep 14, 2022Sep 14, 2022

    • PredictionCode

      Public
      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.
      MATLAB
      •
      GNU General Public License v2.0
      •6•1•0•0•Updated Feb 12, 2022Feb 12, 2022

    • OSAanalysis

      Public
      analysis for OSA recordings
      MATLAB
      •0•0•0•0•Updated Oct 10, 2020Oct 10, 2020

    • NeRVEclustering

      Public
      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.
      MATLAB
      •4•8•0•0•Updated Nov 20, 2018Nov 20, 2018

    • liu-temporal-processing

      Public
      Source code associated with Liu et al "Temporal processing and context dependency in C. elegans response to mechanosensation"
      MATLAB
      •
      GNU General Public License v3.0
      •3•3•0•0•Updated May 28, 2018May 28, 2018

    • gmmreg

      Public
      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.
      C++
      •
      GNU General Public License v3.0
      •96•0•0•0•Updated Apr 19, 2018Apr 19, 2018

    • testPoisson

      Public
      Matlab implementation of E-test for comparing poisson means. Based on Krishnamoorthy, K and Thomson, J. (2004)
      Fortran
      •1•2•1•0•Updated Jan 25, 2018Jan 25, 2018

    • LinderThesisCode

      Public
      MATLAB
      •1•0•0•0•Updated Nov 1, 2017Nov 1, 2017

    • WholeBrainImagingSuite

      Public
      Collection of software components used in Nguyen et al 2015
      0•2•0•0•Updated Mar 24, 2016Mar 24, 2016

    • mindcontrol

      Public
      Closed-loop computer vision software to track and deliver patterned illumination to freely moving C. elegans as part of the CoLBeRT instrument.
      C++
      •
      GNU General Public License v3.0
      •14•6•0•0•Updated Jan 1, 2016Jan 1, 2016

    • matlab-base-utils

      Public
      Library of useful Matlab Utilities
      MATLAB
      •
      BSD 2-Clause "Simplified" License
      •0•1•0•0•Updated Nov 7, 2013Nov 7, 2013

    • TrackFeatureGUI

      Public
      MATLAB GUI for tracking features in images, such as neurons.
      MATLAB
      •0•0•0•0•Updated Oct 29, 2013Oct 29, 2013

    • internal.mindcontrolAPI

      Public
      Interprocess C API / DLL for getting data in and out of the mindcontrol application in realtime.
      C
      •1•1•0•0•Updated Aug 13, 2013Aug 13, 2013

    • InterProcess

      Public
      A compact C library to share data between processes on Windows. Fast. Simple
      C
      •
      GNU General Public License v3.0
      •6•0•0•0•Updated Aug 13, 2013Aug 13, 2013

    • MindControlAccessUtils

      Public
      MATLAB scripts to read in YAML output created by MindControl software.
      MATLAB
      •5•0•0•0•Updated Jun 19, 2013Jun 19, 2013