Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

🎯 ChIP peak Annotation, Comparison and Visualization

GitHub Actions for the R community

A curated list of delightful Bash scripts and resources.

Coursera Course Bioinformatics Code Challenges

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

Solution implementations for the code challenges in the Bioinformatics Specialization by UCSD

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

parallel fastq-dump wrapper

Motif Scan and Enrichment Analysis (MoSEA)

Interactive R package to quantify, analyse and visualise alternative splicing

Alignment-based gene expression quantification

This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.

A fast lossless FASTQ compressor with ultra-high compression ratio

Detect and visualize target mutations by scanning FastQ files directly

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Bpipe - a tool for running and managing bioinformatics pipelines

A curated list of awesome Bioinformatics libraries and software.

💻 GUI for creating bioinformatics workflows from 🐳 Docker containers:

ggx