pip install biopython==1.79

Freely available tools for computational molecular biology.

Source
Among top 1% packages on PyPI.
Over 1.2M downloads in the last 90 days.

Commonly used with biopython

Based on how often these packages appear together in public requirements.txt files on GitHub.

pysam

pysam

pybedtools

Wrapper around BEDTools for bioinformatics work

ete2

A Python Environment for (phylogenetic) Tree Exploration

pandas

Powerful data structures for data analysis, time series, and statistics

snakemake

Snakemake is a workflow management system that aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment, together with a clean and modern specification language in python style. Snakemake workflows are essentially Python scripts extended by declarative code to define rules. Rules describe how to create output files from input files.

python-lorem

Lorem ipsum generator.

ncbi-genome-download

Download genome files from the NCBI FTP server.

ngsutils

NGSUtils - Various utilities for working with NGS data

metaseq

Integrative analysis of high-thoughput sequencing data

mosaik

Mosaik is a flexible Smart-Grid co-simulation framework.

sourmash

tools for comparing DNA sequences with MinHash sketches

manta

A Python SDK for Joyent's Manta service

adam

Adam programming language implemented in python

svtools

Tools for processing and analyzing structural variants

svtyper

Bayesian genotyper for structural variants

beagle

Command line client for Hound

smashbenchmarking

Check the accuracy of one VCF callset against another

canvas

canvas is a simple interface to most common matplotlib functions

pysamstats

A Python utility for calculating statistics against genome position based on sequence alignments from a SAM, BAM or CRAM file.

Version usage of biopython

Proportion of downloaded versions in the last 3 months (only versions over 1%).

1.79

42.28%

1.77

31.97%

1.78

14.72%

1.73

3.72%

1.76

2.44%

1.72

1.19%