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    47 repositories

    • pipeline

      Public
      Schemata and libraries for neuroscientific data
      Python
      •
      GNU Lesser General Public License v3.0
      •48•0•1•1•Updated Apr 16, 2026Apr 16, 2026

    • mouse-neuropixel-export

      Public
      This repository contains code and tutorials for working with mouse neuropixel data
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Jan 15, 2026Jan 15, 2026

    • devenv-engine

      Public
      Core execution engine for DevENVs
      Go
      •
      Apache License 2.0
      •2•0•0•0•Updated Oct 27, 2025Oct 27, 2025

    • pipeline-tp-gui

      Public
      Website for interactions with our two-photon pipeline.
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 27, 2025Sep 27, 2025

    • base-images

      Public
      1•0•0•0•Updated Sep 17, 2025Sep 17, 2025

    • polars_workshop_2025

      Public
      Polars workshop 2025
      Jupyter Notebook
      •2•0•0•0•Updated Aug 21, 2025Aug 21, 2025

    • enty

      Public
      lightweight ORM with a simple interface
      Python
      •
      GNU Lesser General Public License v2.1
      •2•0•0•0•Updated Jun 7, 2025Jun 7, 2025

    • datajoint-python

      Public
      Relational data pipelines for the science lab
      Python
      •
      GNU Lesser General Public License v2.1
      •96•0•0•0•Updated May 22, 2025May 22, 2025

    • mosaic-picasso

      Public
      Crosstalk removal for multiplex fluorescence imaging; Method for calculating and eliminating LBM cavity crosstalk
      Jupyter Notebook
      •6•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • PatchViewer

      Public
      Slice imaging program for patching
      LabVIEW
      •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

    • compress-multiphoton

      Public
      Utilities for compressing multiphoton calcium imaging movies and stacks
      Jupyter Notebook
      •
      Other
      •9•0•0•0•Updated Sep 14, 2023Sep 14, 2023

    • neuropixel-pipeline

      Public
      Schemata and libraries for ingesting and clustering Neuropixel data
      Python
      •
      GNU General Public License v3.0
      •2•5•0•0•Updated Jun 27, 2023Jun 27, 2023

    • PyMouse

      Public
      Behavioral conditioning with mice
      Python
      •6•0•0•0•Updated Apr 27, 2023Apr 27, 2023

    • scanreader

      Public
      Python TIFF Stack Reader for ScanImage 5 scans (including multiROI).
      tiffscanimagescanimage5
      tiffscanimagescanimage5scanimage2016bmultiroi
      Python
      •
      MIT License
      •16•13•4•1•Updated May 2, 2022May 2, 2022

    • pytorch-docker

      Public
      Docker image for Pytorch
      Dockerfile
      •0•0•0•0•Updated Feb 8, 2022Feb 8, 2022

    • CaImAn

      Public
      Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result v…
      Jupyter Notebook
      •
      GNU General Public License v2.0
      •397•1•0•0•Updated Sep 5, 2021Sep 5, 2021

    • gpu-deploy

      Public
      Fabric library for Docker GPU deployment
      Python
      •3•0•0•0•Updated Jul 21, 2021Jul 21, 2021

    • attorch

      Public
      PyTorch Utilities
      Python
      •
      MIT License
      •15•2•1•0•Updated Nov 16, 2020Nov 16, 2020

    • mysql-admin-notes

      Public
      MySQL Administration Notes
      Python
      •2•0•0•0•Updated Oct 29, 2020Oct 29, 2020

    • commons

      Public
      DataJoint schemas for neuroscience data
      MATLAB
      •29•1•0•1•Updated Oct 20, 2020Oct 20, 2020

    • dbbak

      Public
      MySQL database backup scripting
      Shell
      •
      MIT License
      •5•1•0•0•Updated Oct 19, 2020Oct 19, 2020

    • dbms

      Public
      mysql database managment utilities
      Shell
      •
      MIT License
      •0•0•0•0•Updated Jun 8, 2020Jun 8, 2020

    • nacllab

      Public
      Vagrant+ubuntu+salt+zabbix+mysql testbed for administrative testing
      SaltStack
      •0•0•0•0•Updated Jun 2, 2020Jun 2, 2020

    • dy-thesis

      Public
      Dimitri Yatsenko's Thesis
      TeX
      •1•0•0•1•Updated May 7, 2019May 7, 2019

    • zabbix-disk-performance

      Public
      Zabbix template for collecting IO statistics
      Python
      •
      MIT License
      •152•0•0•0•Updated Mar 22, 2019Mar 22, 2019

    • docker

      Public
      Docker Files
      Dockerfile
      •3•0•0•0•Updated Feb 5, 2019Feb 5, 2019

    • FPGAEyeTracker

      Public
      FPGA EyeTracker
      LabVIEW
      •3•5•2•0•Updated Feb 1, 2019Feb 1, 2019

    • at-pyutils

      Public
      lab-wide python utilities
      2•0•0•0•Updated Oct 24, 2018Oct 24, 2018

    • sessions

      Public
      Core DataJoint schemas for experimental sessions
      MATLAB
      •5•0•2•1•Updated Oct 11, 2018Oct 11, 2018

    • percona-monitoring-plugins

      Public
      Percona Monitoring Plugins
      PHP
      •
      GNU General Public License v2.0
      •111•0•0•0•Updated Jun 7, 2018Jun 7, 2018
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