The Top 153 Pdb Open Source Projects on Github

Awesome Open Source

Awesome Open Source

Combined Topics

Advertising 📦 9

Application Programming Interfaces 📦 120

Applications 📦 181

Artificial Intelligence 📦 72

Blockchain 📦 70

Build Tools 📦 111

Cloud Computing 📦 79

Code Quality 📦 28

Collaboration 📦 30

Command Line Interface 📦 48

Community 📦 81

Companies 📦 60

Compilers 📦 60

Computer Science 📦 74

Configuration Management 📦 39

Content Management 📦 167

Control Flow 📦 197

Data Formats 📦 77

Data Processing 📦 266

Data Storage 📦 132

Economics 📦 60

Frameworks 📦 198

Graphics 📦 103

Hardware 📦 148

Integrated Development Environments 📦 47

Learning Resources 📦 147

Libraries 📦 119

Lists Of Projects 📦 21

Machine Learning 📦 336

Mapping 📦 61

Marketing 📦 15

Mathematics 📦 55

Messaging 📦 97

Networking 📦 304

Operating Systems 📦 84

Operations 📦 120

Package Managers 📦 52

Programming Languages 📦 229

Runtime Environments 📦 96

Science 📦 42

Security 📦 375

Social Media 📦 26

Software Architecture 📦 70

Software Development 📦 68

Software Performance 📦 57

Software Quality 📦 127

Text Editors 📦 45

Text Processing 📦 131

User Interface 📦 310

User Interface Components 📦 465

Version Control 📦 29

Virtualization 📦 68

Web Browsers 📦 38

Web Servers 📦 25

Web User Interface 📦 194

The Top 153 Pdb Open Source Projects on Github

Categories > Software Development > Pdb

Ilspy ⭐ 13,921

.NET Decompiler with support for PDB generation, ReadyToRun, Metadata (&more) - cross-platform!

Full-screen console debugger for Python

pdb++, a drop-in replacement for pdb (the Python debugger)

A tool which allows you to edit source code of any MSVC C++ project live at runtime

Pdb Tutorial ⭐ 723

A simple tutorial about effectively using pdb

Reclassex ⭐ 588

Biojava ⭐ 463

📖🔬☕️ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

Nvim Gdb ⭐ 428

Neovim thin wrapper for GDB, LLDB, PDB/PDB++ and BashDB

Biopandas ⭐ 383

Working with molecular structures in pandas DataFrames

Pdbripper ⭐ 357

PDBRipper is a utility for extract an information from PDB-files.

An open library for the analysis of molecular dynamics trajectories

Fakepdb ⭐ 270

Tool for PDB generation from IDA Pro database

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

Ducible ⭐ 205

A tool to make Windows builds reproducible.

Biosyntax ⭐ 184

Syntax highlighting for computational biology

pdb + Rich library

Python Remote Pdb ⭐ 174

Remote vanilla PDB (over TCP sockets).

Pdb and Vim integration

A Python API for the RCSB Protein Data Bank (PDB)

Pdb Tools ⭐ 164

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

A parser for Microsoft PDB (Program Database) debugging information

Pdb Cheatsheet ⭐ 157

A cheatsheet for the Python Debugger (pdb)

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

Rna Tools ⭐ 78

🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) docs @ http://rna-tools.rtfd.io

P2Rank: Protein-ligand binding site prediction tool based on machine learning. Stand-alone command line program / Java library for predicting ligand binding pockets from protein structure.

Freesasa ⭐ 57

C-library for calculating Solvent Accessible Surface Areas

Remotely and collaboratively debug your Python application via an IRC channel.

Biostructures.jl ⭐ 54

A Julia package to read, write and manipulate macromolecular structures (particularly proteins)

Monte Carlo and Molecular Dynamics Simulation Package

Sqlcallstackresolver ⭐ 51

Utility to resolve SQL Server callstacks to their correct symbolic form using just PDBs and without a dump file

Proteinsecondarystructure Cnn ⭐ 50

Protein Secondary Structure predictor using Convolutional Neural Networks

Mitos.jl ⭐ 49

Mutual Information Tools for protein Sequence analysis in Julia

Pytest Pudb ⭐ 46

Pytest PuDB debugger integration

Decorators for debugging Python

NoPdb: Non-interactive Python Debugger

Pdb Tutorial ⭐ 36

📖 pdb 튜토리얼 (https://github.com/spiside/pdb-tutorial 한국어 버전)

Symreader Converter ⭐ 35

Converts between Windows PDB and Portable PDB formats.

Application to assign secondary structure to proteins

Pdbdownloader ⭐ 33

Standalone program to download PDB Symbol files for debugging without WDK

10 Simple Hacks To Speed Up Your Data Analysis In Python ⭐ 29

Some useful Tips and Tricks to speed up the data analysis process in Python.

A fully-featured remote debugger for python

Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure

Cath Tools ⭐ 29

Protein structure comparison tools such as SSAP and SNAP

Single Page Web Application for displaying and studying molecular models

Pdb Benchmarks ⭐ 26

Benchmarking common tasks on proteins in various languages and packages

Dbgsymgrabber ⭐ 26

Just another tool to download specify Symbol (.pdb) files

Protein cavity identification and automatic subpocket decomposition

Lightdock Python2.7 ⭐ 20

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

PDB parser in Haskell

Gosymbols ⭐ 17

Windows PDB symbol server

MOLeculAR structure annoTator

Docker Pudb ⭐ 17

Debug Python code within a Docker container remotely from your terminal using pudb

Biosyntax Archive ⭐ 16

Syntax highlighting for computational biology

Nglviewer ⭐ 16

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

Ihm Dictionary ⭐ 16

📖 mmCIF support for hybrid/integrative models

Devilution Comparer ⭐ 15

Small helper tool to aid comparing functions between devilution and the original binary

Rosettadesign ⭐ 15

RosettaDesign using PyRosetta

Teamcity Symbol Server ⭐ 13

TeamCity Symbol Server plugin

Michelanglo App ⭐ 11

A web app to convert a PyMOL PSE file or PDB file to a easy to implement NGL.js view that can be implemented easily on any site

Emacs Pdb Mode ⭐ 11

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.

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

Mode Task ⭐ 10

PCA and normal mode analysis of proteins

Emacs Pdb Capf ⭐ 10

Completion-at-point function for pdb (Python debugger)

Pythonsymbols ⭐ 10

A WinDbg symbol server for all recent versions of CPython.

Proteinfeatureview ⭐ 9

The Protein Feature View - a SVG library for visualising protein annotations

Biomolecularstructures.jl ⭐ 8

The BiomolecularStructures package provides several Bioinformatics-related modules for Julia.

Prankwebapp ⭐ 8

Web application for protein-ligand binding sites analysis and visualization

Protein Data Bank (pdb) file parser

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

Vscoding Sequence ⭐ 7

VSCode Extension for interactively visualising protein structure data in the editor

A julia package to parse and write MMTF file

Pdb2uniprot ⭐ 7

Convert PDB residues to their Uniprot equivalents

Structureanalyzer ⭐ 6

A program analyzing 3D protein structures from PDB to generate 2D binding motifs

Interactively interface Vim with interpreters

The Visualization of Protein-Ligand Graphs software that powers the PTGL. One of my PhD projects.

Biojava Notebooks ⭐ 6

BioJava examples in Jupyter Notebooks

Biodownloader ⭐ 6

📦 A Command Line Tool for downloading protein structures, sequences and MSAs

CrashFix is a crash report analysis software designed for Windows applications

Fetch PDB symbols directly from Microsoft's symbol servers

Pymolshortcuts ⭐ 5

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..

Natvis Pdbs ⭐ 5

A metabuild / build.rs compatible crate to embed .natvis debug visualizer files into your executable's .pdbs, for ease of debugging.

Surfstamp Public ⭐ 5

3D Printer Compatible Molecular Surface Representation (Do not clone! Everything is in the release page!)

Personal setting files for various tools

An extended variant of idock which was originally developed by @HongjianLi.

Genome Tools ⭐ 4

Tools for exploration and analysis of biochemical data like genomics and proteins

Coffee Mill ⭐ 4

Molecular Dynamics Trajectory Analysis Tools

Periodic Table ⭐ 4

Search PDB by elements.

Molstar React ⭐ 4

Molstar as a react component

Parse Pdb ⭐ 4

A small utility for parsing PDB files into useable JSON

Tcr Pmhc Study ⭐ 4

Mining TCR:pMHC structural data

Collection of modules for PDB file parsing, linear algebra calculations and structure modify.

Pdb Ripper ⭐ 3

Extend dia2dump utility to generate cpp code from pdb

TcL/VMD/psfgen/bash scripts for generating MD systems for use with NAMD

Pytest Pdb Break ⭐ 3

A pytest plugin to help text editors launch a debugging session

Api Webinars ⭐ 3

Study materials for the PDBe API webinar series in September 2020.

Biostructurem ⭐ 3

a basic matlab package for analysis protein structure

Awesomepdb ⭐ 3

Code to accompany my talk - 5 commandments of pdb

Tiny Molecule ⭐ 3

A small, developer-friendly 3D molecule viewer for the modern web

Annotate_lineinfo ⭐ 3

Annotate IDA with source and line number information from a PDB

1-100 of 153 projects

Related Projects

Python Pdb Projects (58)

Bioinformatics Pdb Projects (32)

Protein Structure Pdb Projects (31)

C Plus Plus Pdb Projects (21)

Protein Pdb Projects (21)

Bioinformatics Protein Structure Pdb Projects (14)

Advertising 📦 9

Application Programming Interfaces 📦 120

Applications 📦 181

Artificial Intelligence 📦 72

Blockchain 📦 70

Build Tools 📦 111

Cloud Computing 📦 79

Code Quality 📦 28

Collaboration 📦 30

Command Line Interface 📦 48

Community 📦 81

Companies 📦 60

Compilers 📦 60

Computer Science 📦 74

Configuration Management 📦 39

Content Management 📦 167

Control Flow 📦 197

Data Formats 📦 77

Data Processing 📦 266

Data Storage 📦 132

Economics 📦 60

Frameworks 📦 198

Graphics 📦 103

Hardware 📦 148

Integrated Development Environments 📦 47

Learning Resources 📦 147

Libraries 📦 119

Lists Of Projects 📦 21

Machine Learning 📦 336

Mapping 📦 61

Marketing 📦 15

Mathematics 📦 55

Messaging 📦 97

Networking 📦 304

Operating Systems 📦 84

Operations 📦 120

Package Managers 📦 52

Programming Languages 📦 229

Runtime Environments 📦 96

Science 📦 42

Security 📦 375

Social Media 📦 26

Software Architecture 📦 70

Software Development 📦 68

Software Performance 📦 57

Software Quality 📦 127

Text Editors 📦 45

Text Processing 📦 131

User Interface 📦 310

User Interface Components 📦 465

Version Control 📦 29

Virtualization 📦 68

Web Browsers 📦 38

Web Servers 📦 25

Web User Interface 📦 194

"GitHub" is a registered trademark of GitHub, Inc. Awesome Open Source is not affiliated with GitHub.

All non readme contents or Github based topics or project metadata copyright Awesome Open Source 2018-2021