Updated 6 months ago

org.biojava β€’ Rank 22.4 β€’ Science 77%

:book::microscope::coffee: BioJava is an open-source project dedicated to providing a Java library for processing biological data.

Updated 6 months ago

rna-tools β€’ Rank 14.2 β€’ Science 77%

πŸ”§rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online

Updated 6 months ago

BioStructures β€’ Rank 12.1 β€’ Science 67%

A Julia package to read, write and manipulate macromolecular structures

Updated 6 months ago

pdbtbx β€’ Rank 6.9 β€’ Science 59%

A library to open/edit/save (crystallographic) Protein Data Bank (PDB) and mmCIF files in Rust.

Updated 6 months ago

plip β€’ Rank 16.1 β€’ Science 49%

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to πŸ“ Adasme et al. (2021), https://doi.org/10.1093/nar/gkab294

Scientific Software
Updated 6 months ago

BioPandas β€” Peer-reviewed β€’ Rank 12.5 β€’ Science 49%

BioPandas: Working with molecular structures in pandas DataFrames - Published in JOSS (2017)

Updated 6 months ago

https://github.com/althonos/pyjess β€’ Rank 12.2 β€’ Science 49%

Cython bindings and Python interface to Jess, a 3D template matching software for protein structures.

Updated 6 months ago

proteinn-structure-predictor β€’ Rank 1.6 β€’ Science 57%

A transformer network trained to predict end-to-end single sequence protein structure as a set of angles given amino acid sequences.

Updated 6 months ago

rmsd β€’ Rank 17.6 β€’ Science 36%

Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format

Updated 6 months ago

mmtf.jl β€’ Rank 3.8 β€’ Science 44%

A Julia package to read and write MMTF files

Updated 6 months ago

pdb-benchmarks β€’ Rank 5.5 β€’ Science 31%

Benchmarking common tasks on proteins in various languages and packages

Updated 6 months ago

nglviewer β€’ Rank 10.6 β€’ Science 13%

Visualize and interact with Protein Data Bank (pdb) and structural files in R and Shiny

Updated 6 months ago

crops β€’ Rank 4.9 β€’ Science 13%

Cropping and Renumbering Operations for PDB structure and Sequence files

Updated 6 months ago

https://github.com/bartongroup/proteofav β€’ Rank 6.8 β€’ Science 10%

Open-source framework for simple and fast integration of protein structure data with sequence annotations and genetic variation

Updated 6 months ago

pymolshortcuts β€’ Science 54%

The repository pymolschortucts contains the a collection of shortcuts that are loaded on startup of PyMOL. These shortcuts enable websearches from within PyMOL as well as many other convienent functions that make work in PyMOL more productive..

Updated 6 months ago

orgpymolpysnips β€’ Science 44%

Supports the use of PyMOL in literate programming in org-mode, which is best run in Emacs.

Updated 6 months ago

pdbrust β€’ Science 44%

A Rust library for parsing PDB (Protein Data Bank) files

Updated 4 months ago

https://github.com/deeprank/ponder β€’ Science 10%

PointNet for Deep Rank: protein-protein interaction scoring using neural networks

Updated 6 months ago

cath-tools β€’ Science 28%

Protein structure comparison tools such as SSAP and SNAP

Updated 6 months ago

hbat β€’ Science 49%

HBAT: Hydrogen Bond Analysis Tool (v2)