296 Open source projects that are alternatives of or similar to lightdock

Rosetta FunFolDes – a general framework for the computational design of functional proteins.

Webpage of the Bonvinlab @ Utrecht University and HADDOCK software

Guided Conditional Wasserstein GAN for De Novo Protein Design

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

A Julia package to view macromolecular structures in the REPL, in a Jupyter notebook/JupyterLab or in Pluto

FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.

Official git repository for Biopython (originally converted from CVS)

VSCode Extension for interactively visualising protein structure data in the editor

Web Interface for ChEMBL @ EMBL-EBI

A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

Fast and flexible ORF finder

waka waka

Template with code & dataset for the "Structural basis for solubility in protein expression systems" challenge at the Copenhagen Bioinformatics Hackathon 2021.

📚 🔬 PIA - Protein Inference Algorithms

Deep learning framework for data mining protein-protein interactions using CNN

A Go package for engineering organisms.

Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files

Modelling the Language of Life - Deep Learning Protein Sequences

Neural Networks for Protein Sequence Alignment

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences

🧬 An R package for visualizing molecular data in 3D

An all-atom protein structure dataset for machine learning.

Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.

Predicting protein structure through sequence modeling

View proteins and trajectories in the terminal

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

The specification of the MMTF format for biological structures

tools for reading, writing, merging, and remapping SNPs

Interpretation of proteomics identification results

FreeSASA Python Module

A package for designing activity-informed nucleic acid diagnostics for viruses.

Teaching Utility for Classical Atomistic Simulation.

An update to Component factory's krypton toolkit to support .NET Framework 4.6.2 - 4.8.1 to .NET Core/.NET

Numerical Encoding for Human Genetic Variants

Animation engine for explanatory chemistry videos

Automated reaction pathway search for gas-phase molecules

A Python Library for Energy Profile and Abstract Grid(2D/3D) plotting

An ultra-high-performance protein-protein docking for heterogeneous supercomputers

Python for chemoinformatics

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

The repo for LFQ-Analyst

A update to Component factory's krypton toolkit to support .NET Framework 3.5 to .NET Core

The pmartR R package provides functionality for quality control, normalization, exploratory data analysis, and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data. This includes data transformation, specification of groups that are to be …

Protein Secondary Structure predictor using Convolutional Neural Networks

Advanced Docking System for Qt

A box-model that automatically creates and solves equations used to describe the evolution in atmospheric composition using Python with Numba and, optionally, Fortran.

A Python wrapper for the Chemistry Development Kit (CDK)

extract and tweak data from electrochemical tests of cells

pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning

The official JavaScript library for MathType, the leading formula editor and equation writer for the web by Wiris

Bioclipse2 Core.

periodic-table.io

Chemistry, Gamified

Contact map analysis for biomolecules; based on MDTraj

Proton Exchange Membrane (PEM) Fuel Cell Dataset

PyProphet: Semi-supervised learning and scoring of OpenSWATH results.

Generate input parameters and coordinates for atomistic and coarse-grained simulations of polymers, ssDNA, and carbohydrates

Pytorch/Python3 implementation of DeepAccNet, protein model accuracy evaluator.