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alphafold

Open source code for AlphaFold.

alphapulldown

bayesprism

A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression

caisc

CAISC (Clonal Architecture with Integrating SNV and CNV): a software to integrate copy number variation and single nucleotide mutations for genetic heterogeneity profiling and subclone detection by single-cell RNA sequencing

casper

cellchat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

cellphonedb

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

gficf

An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization

gseapy

Gene Set Enrichment Analysis in Python

mousipy

Translates an AnnData object with mouse gene symbols into one with human gene symbols by mapping orthologs from biomart.

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

scallele

scikit-posthocs

Multiple Pairwise Comparisons (Post Hoc) Tests in Python

scsnv

scSNV Mapping tool for 10X Single Cell Data

scvelo

RNA Velocity generalized through dynamical modeling

scvi-tools

Deep probabilistic analysis of single-cell omics data

strelka

Strelka2 germline and somatic small variant caller

warp

Warp is a blazingly-fast modern Rust based GPU-accelerated terminal built to make you and your team more productive.