sndrtj

boltons

🔩 Like builtins, but boltons. 250+ constructs, recipes, and snippets which extend (and rely on nothing but) the Python standard library. Nothing like Michael Bolton.

shap

A game theoretic approach to explain the output of any machine learning model.

py-spy

Sampling profiler for Python programs

kitty

Cross-platform, fast, feature-rich, GPU based terminal

iRODS-RDM-Compute-training

Course material to teach the integration of RDM and compute workflows.

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

xatlas

civis

JavaScript 4X game

Unicycler

hybrid assembly pipeline for bacterial genomes

dask

Parallel computing with task scheduling

spyder

Official repository for Spyder - The Scientific Python Development Environment

arrow

🏹 Better dates & times for Python

pavian

🌈 Interactive analysis of metagenomics data

peddy

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

nucleus

Python and C++ code for reading and writing genomics data.

seqan

SeqAn's official repository.

hail

Cloud-native genomic dataframes and batch computing

rust-bio

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

rust-htslib

This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.

cyvcf2

cython + htslib == fast VCF and BCF processing

vg

tools for working with genome variation graphs

luigi

Luigi is a Python module that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization etc. It also comes with Hadoop support built in.

cupy

NumPy & SciPy for GPU

flask-marshmallow

Flask + marshmallow for beautiful APIs

hgvs

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

uta

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

sqlitebrowser

Official home of the DB Browser for SQLite (DB4S) project. Previously known as "SQLite Database Browser" and "Database Browser for SQLite". Website at:

vispy

Main repository for Vispy

pygraph

A graph manipulation library in pure Python

rtg-tools

RTG Tools: Utilities for accurate VCF comparison and manipulation