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    50 repositories

    • Tanaka_2025_hysteresis

      Public
      Code to replicate the analyses presented in the manuscript Tanaka & Portugues (2025) Algorithmic dissection of optic flow memory in larval zebrafish.
      0•0•0•0•Updated Jul 18, 2025Jul 18, 2025

    • Paoli_et_al_2025

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jun 27, 2025Jun 27, 2025

    • Koetter-et-al-fin

      Public
      Code for Data Processing and Figure Generation for Koetter et al. 2025
      Jupyter Notebook
      •0•0•0•0•Updated Jun 9, 2025Jun 9, 2025

    • sashimi

      Public
      Lightsheet control
      Python
      •
      GNU General Public License v3.0
      •3•1•30•8•Updated Mar 5, 2025Mar 5, 2025

    • fimpy

      Public
      Python
      •
      Other
      •0•1•6•2•Updated Dec 24, 2024Dec 24, 2024

    • flammkuchen

      Public
      Flexible HDF5 saving/loading library forked from deepdish (University of Chicago) and maintained by the Portugues lab
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •64•16•2•0•Updated Dec 6, 2024Dec 6, 2024

    • stytra

      Public
      A modular package to control stimulation and track behaviour
      psychophysicsacquisitionneuroscience-laboratoryethology
      Python
      •
      GNU General Public License v3.0
      •26•46•32•5•Updated Nov 8, 2024Nov 8, 2024

    • brunoise

      Public
      2-photon scanning software in Python
      Python
      •
      GNU General Public License v3.0
      •2•4•22•4•Updated Sep 13, 2024Sep 13, 2024

    • Prat_et_al

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Apr 8, 2024Apr 8, 2024

    • arrayqueues

      Public
      Multiprocessing queues for numpy arrays using shared memory
      numpy-arrays
      Python
      •
      MIT License
      •7•59•2•1•Updated Aug 2, 2023Aug 2, 2023

    • Stytra-with-DeepLabCut

      Public
      Example of stytra usage without zebrafish
      Python
      •
      GNU Lesser General Public License v3.0
      •2•4•0•0•Updated Jun 26, 2023Jun 26, 2023

    • bouter

      Public
      Python
      •
      Other
      •1•1•3•1•Updated May 3, 2023May 3, 2023

    • napari-split-dataset

      Public
      hdf5/split-dataset file reader for napari
      Python
      •0•1•0•0•Updated May 3, 2023May 3, 2023

    • lotr

      Public
      Motion integration analysis
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Mar 31, 2023Mar 31, 2023

    • scopecuisine

      Public
      Python
      •
      Other
      •0•0•7•3•Updated Dec 26, 2022Dec 26, 2022

    • Graph-analysis-michael

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Oct 4, 2022Oct 4, 2022

    • ec-code

      Public
      Code for the analysis of eurydendroid cells data
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 25, 2022Apr 25, 2022

    • split_dataset

      Public
      A minimal package for saving and reading large HDF5-based chunked arrays.
      Python
      •
      Other
      •0•15•1•0•Updated Apr 12, 2022Apr 12, 2022

    • xiao_et_al

      Public
      Stytra stimuli and analysis notebooks for Xiao et al, 2022
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Jan 23, 2022Jan 23, 2022

    • VolumeRegistration.jl

      Public
      Subpixel volumetric registration
      Julia
      •
      Other
      •1•5•2•1•Updated Aug 4, 2021Aug 4, 2021

    • markov-et-al

      Public
      Scripts for the Markov et al paper on motor adaptation
      MATLAB
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 30, 2021Jul 30, 2021

    • Clustering-Pipeline

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Apr 19, 2021Apr 19, 2021

    • hackathon2021

      Public
      Folder with the material of the Portugues lab hackaton 2021
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 21, 2021Feb 21, 2021

    • MakieAddons.jl

      Public
      Utility functions for Makie plots
      Julia
      •0•0•0•0•Updated Oct 25, 2020Oct 25, 2020

    • Jafari-et-al-2020

      Public
      Code and sample data used for parts of the analysis in the paper Jafari et al 2020
      MATLAB
      •0•0•0•0•Updated Sep 13, 2020Sep 13, 2020

    • SplitDataset.jl

      Public
      Reading and writing of SplitDatasets in Julia
      hdf5julia
      Julia
      •
      MIT License
      •0•0•0•0•Updated Sep 3, 2020Sep 3, 2020

    • napari-hdf5

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•1•0•Updated Aug 21, 2020Aug 21, 2020

    • lightparam

      Public
      Another attempt at parameters in Python
      Python
      •
      MIT License
      •0•3•2•0•Updated Jul 28, 2020Jul 28, 2020

    • theknights

      Public
      Python
      •
      Other
      •0•0•2•0•Updated Jul 25, 2020Jul 25, 2020

    • lsmlsda2020

      Public template
      Repo for students of the class 'Large Scale Modelling and Large Scale Data Analysis'
      Jupyter Notebook
      •3•0•0•0•Updated Jun 24, 2020Jun 24, 2020