Biopython Python Packages

biopython

Official git repository for Biopython (originally converted from CVS)

iplotx

Visualise networks and trees in Python, with style.

cogent3

Comparative Genomics Toolkit 3

pydna

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

snapgene-reader

👓 Python library to parse Snapgene *.dna files to dict or biopython seqrecord.

seqlike

Unified biological sequence manipulation in Python

python-circos

python Circos

bioprov

A provenance library for bioinformatics workflows 🧬 🔀 📝

biololpython

Analyze bio sequences with internet slang

gbkviz

Easy-to-use web application for visualization and comparison of genomes in Genbank file

moclo

A Python implementation of the MoClo system logic.

pandas-charm

Python library for getting character matrices (alignments) into and out of pandas

biobridge

Biobridge is a Python library for simulating biological processes and systems also analyzing them, visualising them, and interacting with them.

phylopandas

Pandas DataFrames for phylogenetics

orthoani

A Python implementation of the OrthoANI algorithm for nucleotide identity measurement. (renamed to pyorthoani)

perf-ssr

PERF is an exhaustive repeat finder

vcfsynonymous

read VCF and select synonymous or non-synonymous coding variants

phytreeviz

Simple phylogenetic tree visualization python package for phylogenetic analysis

moclo-ytk

Yeast ToolKit implementation for the base moclo library.

moclo-cidar

Modular cloning simulation with the MoClo framework in Python

moclo-ecoflex

Modular cloning simulation with the MoClo framework in Python

python-queen

QUEEN: a framework to generate quinable and efficiently editable nucleotide sequence resources

mikoshi-bio

Molecular modeling extension for MikoshiLang — protein structures, MD analysis, and docking

primerdriver

PrimerDriver - Automated design of mutagenic PCR primers