STUMPY is a powerful and scalable Python library for modern time series analysis

Runs and compares different methylation based cell type deconvolution algorithms

Effortless AI-assisted data labeling with AI support from YOLO, Segment Anything (SAM+SAM2), MobileSAM!!

Codespaces but open-source, client-only and unopinionated: Works with any IDE and lets you use any cloud, kubernetes or just localhost docker.

lakeFS - Data version control for your data lake | Git for data

Differential abundance and gene expression in single-cell data

Code to reproduce the results from the IBDome paper

Clean data and load it to the central database.

The OpenStudyBuilder is an open-source project for clinical study evaluations. This tool is a new approach for working with studies that once fully implemented will drive end-to-end consistency and…

Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data

The AnnSQL package enables SQL based queries on AnnData objects.

Multimodal Whole Slide Foundation Model for Pathology

Public terrain tiles for interactive web map visualizations

High-Performance Sparse Matrix Library

Open hardware and software tools for communicating with Miele appliances via their optical diagnostic interface

Versatile typeface for code, from code.

Free cross-platform password manager compatible with KeePass

Command line csv viewer

A modern static site generator by the Material for MkDocs team

github action for pre-commit-ci lite

List of Spatial Transcriptomics related Tools organized per category

C++ whole slide image reader with native python bindings

Statistics for the scverse.

Run nf-core modules directly from python

Pulumi - Infrastructure as Code in any programming language 🚀

An EDC and Data Standard agnostic SDTM data transformation engine that automates the transformation of raw clinical data in ODM format to SDTM based on standard mapping algorithms

Nextflow plugin enabling seamless integration between Nextflow and Python 🧪