Stars
Open-source data lakehouse for biology. Query, trace & validate with a lineage-native lakehouse that supports bio-formats, registries & ontologies. 🍊YC S22
High-performance UMI tools for NGS data analysis
Turn any AI agent into an AI Scientist. The #1 Agent Skills library for science, used by 160,000+ scientists worldwide. 140 ready-to-use skills plus 100+ scientific databases covering biology, chem…
Tahoe-x1 is a single cell foundation model designed for gigascale datasets
High accuracy RAG for answering questions from scientific documents with citations
Paper2Agent is a multi-agent AI system that automatically transforms research papers into interactive AI agents with minimal human input.
Implements *CellAnnotator (aka *CAT/starCAT), annotating scRNA-Seq with predefined gene expression programs
Code for paper "A deep profile of gene expression across 18 human cancers"
A single cell RNA-seq reference map of human hematopoietic development in the bone marrow, with balanced representation of hematopoietic stem and progenitor cells and differentiated populations
Analysis notebooks and data for AML hierarchies paper
Algorithmically create or extend categorical colour palettes
scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing and spatial data in an easy and efficient way.
An open, collaborative project to analyze data from the Single-cell Pediatric Cancer Atlas (ScPCA) Portal
Python package designed to visualize gene models from GTF files and variants from VCF files.
Command line scientific data management tool
📦 Structstrings: implementation of Biostrings to work with dot bracket annotations
A guide for using the alpine server at the University of Colorado
R package for using SNPs to QC HTO and LMO demultiplexing calls
Single-cell analysis with non-negative matrix factorization
Rcpp Machine Learning: Fast robust NMF, divisive clustering, and more