Oxford Nanopore's Basecaller

This is the development fork - Stable code has been moved to ==>

A high-performance, zero-overhead, extensible Python compiler using LLVM

Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

Vim-fork focused on extensibility and usability

Genealogical Estimation of Variant Age (GEVA)

Methylation/modified base calling separated from basecalling.

Read, manipulate and visualize 'Pairwise mApping Format' data in R

Interactive phased haplotype viewer

Embeddable genomic visualization component based on the Integrative Genomics Viewer

Make JSON greppable!

The Nature of Code book (archived repo, see README for new repo / build system!)

Reducing reference bias using multiple population reference genomes

Fast and accurate coordinate conversion between assemblies

🔬 BEDOPS: high-performance genomic feature operations

"Probabilistic Machine Learning" - a book series by Kevin Murphy

Memray is a memory profiler for Python

GenMap - Fast and Exact Computation of Genome Mappability

A cross-platform command-line tool for executing jobs in parallel

V2 of Real World OCaml

"re-Searcher" is a toolbox aimed to simplify the task for genomics data mining from big VCF files.

Collapsed Haplotype Pattern Method for Linkage Analysis of Next-Generation Sequencing Data

PhenoApt python client API library

All Algorithms implemented in Python

Hierarchical Alignment Format

An introduction about the Genome-in-a-Bottle project

Examples of how to create colorful, annotated equations in Latex using Tikz.