Portugues lab

arrayqueues

Multiprocessing queues for numpy arrays using shared memory

stytra

A modular package to control stimulation and track behaviour

flammkuchen

Flexible HDF5 saving/loading library forked from deepdish (University of Chicago) and maintained by the Portugues lab

split_dataset

A minimal package for saving and reading large HDF5-based chunked arrays.

VolumeRegistration.jl

Subpixel volumetric registration

Stytra-with-DeepLabCut

Example of stytra usage without zebrafish

lightparam

Another attempt at parameters in Python

napari-hdf5

brunoise

2-photon scanning software in Python

bouter

fimpy

napari-split-dataset

hdf5/split-dataset file reader for napari

PaddedBlocks.jl

Utilities for generating blocks for processing data, with optional padding

sashimi

Lightsheet control

hackathon2021

Folder with the material of the Portugues lab hackaton 2021

scopecuisine

cellfinder

Automated 3D cell detection and registration of whole-brain images

Clustering-Pipeline

ec-code

Code for the analysis of eurydendroid cells data

Graph-analysis-michael

Jafari-et-al-2020

Code and sample data used for parts of the analysis in the paper Jafari et al 2020

lotr

Motion integration analysis

lsmlsda2020

Repo for students of the class 'Large Scale Modelling and Large Scale Data Analysis'

MakieAddons.jl

Utility functions for Makie plots

markov-et-al

Scripts for the Markov et al paper on motor adaptation

Parameters.jl

Types with default field values, keyword constructors and (un-)pack macros

Prat_et_al

SplitDataset.jl

Reading and writing of SplitDatasets in Julia

theknights

xiao_et_al

Stytra stimuli and analysis notebooks for Xiao et al, 2022