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    37 repositories

    • U19-pipeline-python

      Public
      The python data pipeline defined with DataJoint for U19 projects
      Jupyter Notebook
      •14•1•3•1•Updated Jun 3, 2025Jun 3, 2025

    • U19-pipeline-matlab

      Public
      Data pipeline for U19 projects
      MATLAB
      •10•0•6•0•Updated Jun 2, 2025Jun 2, 2025

    • element-array-ephys

      Public
      DataJoint Element for Neuropixels analysis with Kilosort
      Python
      •
      MIT License
      •37•0•0•1•Updated May 21, 2025May 21, 2025

    • VRrigs-documentation

      Public
      JavaScript
      •1•0•0•1•Updated May 15, 2025May 15, 2025

    • braincogs.github.io

      Public
      HTML
      •0•0•0•0•Updated Apr 14, 2025Apr 14, 2025

    • streamlit-drawable-canvas

      Public
      Do you like Quick, Draw? Well what if you could train/predict doodles drawn inside Streamlit? Also draws lines, circles and boxes over background images for annotation.
      TypeScript
      •
      MIT License
      •108•0•0•0•Updated Mar 19, 2025Mar 19, 2025

    • Microscope

      Public
      Design and documentation for the 2p microscope.
      PostScript
      •
      Creative Commons Attribution 4.0 International
      •1•14•0•0•Updated Feb 20, 2025Feb 20, 2025

    • element-calcium-imaging

      Public
      DataJoint Element for multi-photon calcium imaging analysis with CaImAn and Suite2p
      Jupyter Notebook
      •
      MIT License
      •48•0•0•0•Updated Jan 24, 2025Jan 24, 2025

    • U19-Data-Viewer

      Public
      Python
      •4•0•0•0•Updated Jan 14, 2025Jan 14, 2025

    • RecordingProcessJobGUI

      Public
      GUI to register recordings in the automatic pipeline
      Python
      •
      GNU General Public License v3.0
      •2•0•0•1•Updated Dec 10, 2024Dec 10, 2024

    • BrainCogsEphysSorters

      Public
      Compilation of electrophysiology sorters supported in the U19 Ephys Pipeline
      MATLAB
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Oct 10, 2024Oct 10, 2024

    • iblapps

      Public
      pyqt5 dependent applications for IBL sessions
      Python
      •
      MIT License
      •16•0•0•0•Updated Sep 9, 2024Sep 9, 2024

    • neuroglancer

      Public
      WebGL-based viewer for volumetric data
      TypeScript
      •
      Apache License 2.0
      •319•2•0•1•Updated Jul 24, 2024Jul 24, 2024

    • PureVirmen

      Public
      C
      •
      Other
      •0•0•0•0•Updated Jan 29, 2024Jan 29, 2024

    • neuronex_workshop_2018

      Public
      Workshop material from DataJoint NeuroNex Workshop 2018
      Jupyter Notebook
      •4•1•0•0•Updated Feb 20, 2023Feb 20, 2023

    • datajoint-matlab

      Public
      Relational data pipelines for the science lab
      MATLAB
      •
      MIT License
      •40•0•0•0•Updated Oct 16, 2022Oct 16, 2022

    • PintoEtAl2020_subtrial_inact

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 25, 2022Apr 25, 2022

    • precomputed

      Public
      Slurm/python scripts for converting light sheet data to precomputed format for Neuroglancer visualization
      Python
      •1•3•0•1•Updated Feb 24, 2022Feb 24, 2022

    • lightserv

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•1•0•Updated Feb 20, 2022Feb 20, 2022

    • precomputed_annotations

      Public
      Make precomputed annotation layers for browsing in Neuroglancer
      Python
      •0•2•0•0•Updated Feb 12, 2022Feb 12, 2022

    • BrainPipe

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •9•3•0•0•Updated Feb 2, 2022Feb 2, 2022

    • pystripe

      Public
      An image processing package for removing streaks from SPIM images
      Jupyter Notebook
      •
      MIT License
      •18•0•0•0•Updated Dec 8, 2021Dec 8, 2021

    • brain_atlas_toolkit

      Public
      A set of python tools for navigating, viewing and manipulating hierarchical brain atlases
      Python
      •
      GNU General Public License v3.0
      •0•5•0•0•Updated Sep 30, 2021Sep 30, 2021

    • HPC_manifolds

      Public
      Analysis of hippocampal activity in the towers task
      MATLAB
      •5•20•0•0•Updated Apr 29, 2021Apr 29, 2021

    • jenkins_tutorial

      Public
      Repository for Jenkins tutorial
      Python
      •21•0•0•6•Updated Feb 13, 2021Feb 13, 2021

    • sak_ci_utilities

      Public
      Matlab file exchange functions for SAK imaging pipeline
      MATLAB
      •0•0•0•0•Updated Jan 6, 2021Jan 6, 2021

    • behavioralAnalysis

      Public
      Contains functions to analyze behavioral and optogenetic inactivation data during the accumulating-towers, visually-guided and memory-guided tasks. Written by Lucas Pinto, [email protected], unless stated otherwise in the function header
      MATLAB
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Oct 26, 2020Oct 26, 2020

    • widefieldImaging

      Public
      Contains functions to preprocess and analyze widefield calcium imaging data, written by Lucas Pinto, [email protected]
      MATLAB
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Oct 26, 2020Oct 26, 2020

    • princeton-ecs

      Public
      C++
      •0•0•0•0•Updated Oct 9, 2020Oct 9, 2020

    • opencv-ecs

      Public
      C++
      •
      Other
      •0•0•0•0•Updated Aug 25, 2020Aug 25, 2020