Biopython Python Packages

biopython

Official git repository for Biopython (originally converted from CVS)

snapgene-reader

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

pydna

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

splicecraft

Terminal-based plasmid map viewer, sequence editor, and cloning/mutagenesis workbench in pure Python

cogent3

Comparative Genomics Toolkit 3

iplotx

Visualise networks and trees in Python, with style.

seqlike

Unified biological sequence manipulation in Python

bioprov

A provenance library for bioinformatics workflows 🧬 🔀 📝

python-circos

python Circos

biobridge

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

moclo

Modular cloning simulation with the MoClo framework in Python

phylopandas

Pandas DataFrames for phylogenetics

orthoani

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

pandas-charm

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

computase

Local, reproducible DNA and RNA sequence utilities for Python, with optional MCP access.

gbkviz

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

phytreeviz

Simple phylogenetic tree visualization python package for phylogenetic analysis

perf-ssr

PERF is an Exhaustive Repeat Finder

moclo-ytk

Modular cloning simulation with the MoClo framework in Python

vcfsynonymous

read VCF and select synonymous or non-synonymous coding variants

moclo-ecoflex

Modular cloning simulation with the MoClo framework in Python

moclo-cidar

Modular cloning simulation with the MoClo framework in Python

pyorthoani

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

enigmadatabase

Dataset generation pipeline for Enigma2 using NCBI database