Search Packages

biopython

Official git repository for Biopython (originally converted from CVS)

pyfaidx

Efficient pythonic random access to fasta subsequences

prody

A Python Package for Protein Dynamics Analysis

pdb-tools

A dependency-free cross-platform swiss army knife for PDB files.

prospr

Prospr is a universal toolbox for protein structure prediction within the HP-model. The Python package is based on a C++ core, which gives Prospr its high performance. The C++ core is made available as a separate zip file to facilitate high-performance computing applications. The package comes with many prediction algorithms and datasets to use.

rosettapy

A Python utility for wrapping Rosetta command line tools.

peptides

Physicochemical properties, indices and descriptors for amino-acid sequences.

graphein

Protein Graph Library

icn3dpy

An IPython interface for embedding iCn3D viewer

synth-pdb

Generate realistic PDB files with mixed secondary structures for testing, education and bioinformatics tool development

cpdb-protein

Cython implementation of PDB -> DataFrame parsing

orfipy

Fast and flexible ORF finder

esm2quinox

An implementation of ESM2 in Equinox+JAX

flatprot

A tool for 2D protein visualization aimed at improving the comparability of protein structures through standardized 2D visualizations.

agfusion

Python package to annotate and visualize gene fusions.

pixelgen-pixelator

A command-line tool and library to process and analyze sequencing data from Molecular Pixelation (MPX) and Proximity Network (PNA) assays.

rosetta-finder

A Python utility for wrapping Rosetta command line tools.

chilife

Python package for site-directed spin labeling of proteins

pyxlms

A python package to process protein cross-linking data.

mhcxgraph

A Python package for detecting potential T cell receptor cross-reactivity based on peptide–MHC structures

py-packman

Python package built around protein structure and dynamics. OpenBabel-inspired objects.

covdrugsim

:zap: A package to automate quantum mechanical calculations and molecular dynamics simulations of drugs.

peptacular

A Python package for peptide sequence analysis built around ProForma 2.1 notation. Calculate masses, generate fragments, predict isotopic patterns, and more.

biobase

A home for all biological/bioinformatics constants from protein strings to BLOSUM matrices.