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

BioProv - Provenance capture for bioinformatics workflows

biobridge

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

moclo

A Python implementation of the MoClo system logic.

perf-ssr

PERF is an exhaustive repeat finder

vcfsynonymous

read VCF and select synonymous or non-synonymous coding variants

gbkviz

Simple web application to visualize and compare genomes in Genbank files

phytreeviz

Simple phylogenetic tree visualization python package for phylogenetic analysis

phylopandas

Pandas for phylogenetics

orthoani

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

pandas-charm

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

moclo-ytk

Modular cloning simulation with the MoClo framework in Python

moclo-ecoflex

Modular cloning simulation with the MoClo framework in Python

enigmadatabase

NCBI DNA Database Builder and Dataset Loader for ML pipelines (Enigma2).

moclo-cidar

Modular cloning simulation with the MoClo framework in Python

biololpython

Analyze bio sequences with internet slang

biographs

Python class to easily deal with protein networks.

pyorthoani

A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.