Sebastien Herbert's repositories
stitchingMacro
performs a flat field correction followed by a 2D+t stitching, registration and binarization
cellpose-napari
napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
Language:PythonBSD-3-Clause000
cli
GitHub’s official command line tool
Language:GoMIT000
clij2-docs
Documentation for CLIJ2
Language:ImageJ MacroNOASSERTION000
Language:JavaBSD-2-Clause000
Language:MatlabBSD-3-Clause000
ilastik
ilastik-shell, applets, and workflows to string them together.
Language:PythonNOASSERTION000
napari-segment-blobs-and-things-with-membranes
A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/or membranes.
Language:PythonBSD-3-Clause000
Language:MATLABBSD-3-Clause000
pyHiM
Multiplexed DNA-FISH data analysis pipeline
Language:Jupyter NotebookLGPL-3.0000
snakemake-workflows
snakemake workflows produced, tested and used at MPI CBG
Language:PythonBSD-3-Clause000
starfish
starfish: unified pipelines for image-based transcriptomics
Language:PythonMIT000
volumina
Volume Slicing and Editing
NOASSERTION000