Command-line JSON processor

How to Make a Computer Operating System in C++

Terrain rendering algorithm in less than 20 lines of code

TIC-80 is a fantasy computer for making, playing and sharing tiny games.

Linux running inside a PDF file via a RISC-V emulator

One true awk

A versatile pairwise aligner for genomic and spliced nucleotide sequences

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

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Toolkit for processing sequences in FASTA/Q formats

C library for high-throughput sequencing data formats

A C interpreter and API explorer.

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

Create an index on a compressed text file

BWK awk modified for biological data

PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner. This is a comprehensive upd…

Sequence-to-graph mapper and graph generator

Align proteins to genomes with splicing and frameshift

lumpy: a general probabilistic framework for structural variant discovery

A flexible framework for rapid genome analysis and interpretation

Debugging like a sir (in C)

UCSC Genome Browser source. "beta" is released version / "master" is testing.

Interval data structure

Pairwise whole genome aligner

Constructing a pangenome gene graph

Detecting sites of genomic enrichment

Benchmarking programming languages/implementations for common tasks in Bioinformatics

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)