Read-based phasing of genomic variants, also called haplotype assembly

A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions

The simplest, fastest repository for training/finetuning medium-sized GPTs.

A pipeline for processing calling cards data

code templates and training materials to perform downstream analysis from scRNA preprocessing

code templates and training materials to perform downs-tream analysis from nf-core RNAseq pipelines

Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.

Fast FASTX parsing and k-mer methods in Rust

Rayon: A data parallelism library for Rust

Airspeed Velocity: A simple Python benchmarking tool with web-based reporting

ChIP-seq peak-calling, QC and differential analysis pipeline.

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

🐝 Awesome R and Python packages offering extended UI or server components for the web framework Shiny

Modify existing reference fasta and gff3/gtf files to include a new sequence

Docker images for R with GPU support.

The ultimate Vim configuration (vimrc)

R package to define and fit mixture and hidden Markov (dependent mixture) models

Snapshot Testing utils for Python 📸

An extremely fast Python linter and code formatter, written in Rust.

Line-by-line profiling for Python

📊 A universal enrichment tool for interpreting omics data

A DSL for data-driven computational pipelines

Shiny apps for NGS etc based on reusable components created using Shiny modules

Edit and review GitHub issues and pull requests from the comfort of your favorite editor

Composable transformations of Python+NumPy programs: differentiate, vectorize, JIT to GPU/TPU, and more

Nextflow pipeline for analysis of Nanopore Whole Genome Sequencing

PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.

NGSNGS: Next generation simulator for next generation sequencing data

Collection of common utilities too small to get their own repository