Machine Learning From Scratch. Bare bones NumPy implementations of machine learning models and algorithms with a focus on accessibility. Aims to cover everything from linear regression to deep lear…

scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.

Plant phenotyping with image analysis

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

Official Python client for accessing ChEMBL API

Code, unit tests, and tutorials for running PICRUSt2

Scikit-learn compatible library for molecular fingerprints and chemoinformatics

GFF and GTF file manipulation and interconversion

Python library for processing (tandem) mass spectrometry data and for computing spectral similarities.

ScaffoldGraph is an open-source cheminformatics library, built using RDKit and NetworkX, for the generation and analysis of scaffold networks and scaffold trees.

List of genome assembly tools

The Mass Spec Query Language (MassQL) is a domain specific language meant to be a succinct way to express a query in a mass spectrometry centric fashion.

A simple command-line tool to download data from Joint Genome Institute databases

libChEBIpy: a Python API for accessing the ChEBI database

Neptune: Genomic Signature Discovery

A python client for the ClassyFire API

From mass to chemistry - common utilities in interpreting mass spectrometry data

a tool to classify genomes into the specI taxonomy