pdb-files
There are 79 repositories under pdb-files topic.
biotite-dev/biotite
A comprehensive library for computational molecular biology
horsicq/PDBRipper
PDBRipper is a utility for extract an information from PDB-files.
BioPandas/biopandas
Working with molecular structures in pandas DataFrames
mdtraj/mdtraj
An open library for the analysis of molecular dynamics trajectories
project-gemmi/gemmi
macromolecular crystallography library and utilities
HoShiMin/formatPE
A bunch of parsers for PE and PDB formats in C++
molstar/VSCoding-Sequence
VSCode Extension for interactively visualising protein structure data in the editor
Biswa96/PDBDownloader
Standalone program to download PDB Symbol files for debugging without WDK
microsoft/SQLCallStackResolver
A sample tool for users of Microsoft SQL Server to aid in troubleshooting otherwise difficult to diagnose issues. Provided AS-IS - see SUPPORT.md.
gu1729/pdbdump
Dump content of PDB files (program databases) in JSON, XML, SQLite3, CSV etc.
Broihon/Symbol-Parser
Small class to parse debug info from PEs, download their respective PDBs from the Microsoft Public Symbol Server and calculate RVAs of functions
jgreener64/pdb-benchmarks
Benchmarking common tasks on proteins in various languages and packages
PDB-REDO/libcifpp
Library containing code to manipulate mmCIF and PDB files
smx-smx/PDBSharp
Fast and cross-platform parser for Microsoft PDB files
SeanCline/PythonSymbols
A WinDbg symbol server for all recent versions of CPython.
a-r-j/CPDB
Cython implementation of PDB -> DataFrame parsing
PombertLab/3DFI
The 3DFI pipeline predicts the 3D structure of proteins and searches for structural homology in the 3D space.
johnnytam100/pdb2uniprot
A Python script to map PDB ID + chain ID to UniProt ID.
lucagl/MOAD_ligandFinder
A script able to extract ligands from pdb structure(s) and remove them from the original structure. The ligands are identified according to the *valid* ligands found in the binding MOAD database. The ligand can be extracted as a pdb or as a xyz (coordinate) file. Other options such as converting the queried pdb to pqr are available .
mmagnus/emacs-pdb-mode
pdb-mode is an emacs-lisp minor mode for Emacs to perform a number of useful editing functions on Protein DataBank (PDB) formatted files. XEmacs and/or GNU Emacs are available for most computing platforms.
Sarah-Hesham-2022/Unity-Protein-Visualization
Protein Visualization using Unity and C# analysis on PDB Files.
hocinebib/PisaPy
Python code to automatically interact with PDBePISA web server
Sarah-Hesham-2022/BioPhysics-Molecular-Dynamics-Simulation
Using VMD and NAMD for molecular dynamics simulation of protein PDB files.
metaworm/pdb-viewer
PDB Viewer powered by Rust + WASM, high performance, no backend. https://pdbview.metaworm.site/ http://pdb.metaworm.site/
project-gemmi/pdb-stats
Clickable PDB statistics: synchrotrons and MX software
ISDementyev/pmUE
pmUE (Protein Modelling Unreal Engine) - a repo for constructing a molecule visualizer plugin in Unreal
mindleaving/genome-tools
Tools for exploration and analysis of biochemical data like genomics and proteins
moritzobenauer/ProjectRaccoon
Automated construction of atomistic and coarse-grained models in the PDB format for polymer peptide conjugates.
OmerRaviv/PdbBenchmarks
Benchmark for the most popular managed PDB readers.
jewettaij/dlpdb
collect statistics from the entire PDB library
shred/commons-pdb
Read PalmOS PDB files with Java
continuous-symmetry-measure/pdb_prep
PDB file parser and prepare tools.
JMB-Scripts/CIF-to-PDB
Convert in batch CIF files to PDB
Spenhouet/PDBViewer
Visualization of proteins directly from the PDB database or from a .pdb file.
project-gemmi/wasm
Parts of Gemmi in WebAssembly.
Sarah-Hesham-2022/TCL-TK-VMD-PDB
TCL-TK for VMD.