Joel Lüthi's repositories
napari-feature-visualization
Visualizing feature measurements on label images in napari
cellpose-hackaton-liberalilab
Template notebook & instructions to interactively train 3D cellpose models
napari-animation-tutorial
Napari tutorial covering installation, basic usage & napari animation functionality
napari-ome-zarr-roi-loader
Loads ROIs stored in OME-Zarr tables
ForkStitcher
Repository for the tool to stitch Talos images annotated in the MAPS viewer
bio325_2021
IT introduction for BIO325 (fall 2021)
CellProfiler
An open-source application for biological image analysis
cookiecutter-napari-plugin
Cookiecutter for napari plugins
ImagePreProcessing
Custom scripts for image preprocessing
faim-ipa
Package to organize high content screening experiments.
fractal-helper-tasks
Collection of Fractal helper tasks
fractal-ome-zarr-hcs-stitching
Fractal task(s) for registering and fusing OME-Zarr HCS using multiview-stitcher.
fractal-tasks-demo
Demo package for Fractal task creation (based on tasks-templates)
jgo
Launch Java code from the CLI, installation-free. ☕
multiview-stitcher
A toolbox for registering / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.
ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
ome-ngff-tables-prototype
prototype python implementation of the ome-ngff table spec
ome-zarr-py
Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
p-body-randomness
Course project about p bodies
SubcellularLocalizationPrediction
PhD Thesis work on predicting the subcellular localization of organelles within cells
TissueMAPS
Main TissueMAPS repository that bundles different repositories.
training-resources
Resources for teaching/preparing to teach bioimage analysis