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ashlar

ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration

cardipeak

Bokeh application for visualizing and automatically analyzing calcium intensity signals over time.

crossspeciesintegration

Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets

cytodata-hackathon-base

intro-napari-slides

Introductory slideshow to napari

intro-napari-workshop

Intro to napari Workshop

linkml

Linked Open Data Modeling Language

linkml-arrays

Support for N-dimensional arrays in LinkML.

linkml-model

Link Modeling Language (LinkML) model

linkml-sandbox

Experimental repository for exploring a common framework for bioimaging metadata models

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

napari

napari: a fast, interactive, multi-dimensional image viewer for python

napari-cell-gater

A napari plugin for cell marker gating.

napari-experimental

napari-ome-zarr

A napari plugin for zarr backed OME-NGFF images

napari-release-tools

Tools for speedup napari release process

napari-spatialdata

Interactive visualization of spatial omics data

napari_docs

Documentation for napari (other than API docs)

ngff

Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.

ome-ld

Linked Data support for the OME Model

ome-model

OME model (specification, code generator, implementation)

pandas-profiling

Create HTML profiling reports from pandas DataFrame objects

scanpy

Single-cell analysis in Python. Scales to >1M cells.

spatialdata

An open and universal framework for processing spatial omics data

spatialdata-io

spatialdata-notebooks

spatialdata-plot

Static plotting for spatialdata

spatialdata-sandbox

ts-json-schema-generator

Generate JSON schema from your Typescript sources

unets

Applying UNET to MICS data