Awesome Open Source

Programming Languages

Search results for protein

1,092 search results found

Keto diet info, recipes, and more

Molecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.

Pyentrezid ⭐ 28

Converts Ensembl, Uniprot, and HGNC IDs to Entrez Gene Id

PACKMAN: PACKing and Motion ANalysis

Bitacora ⭐ 27

BITACORA: A Bioinformatics tool for gene family annotation

Hotspots ⭐ 27

A knowledge-based method for determining small molecule binding "hotspots".

Metablastr ⭐ 27

Seamless Integration of BLAST Sequence Searches in R

Dbscan Swa ⭐ 27

Phages2050 ⭐ 27

PHAGES2050 - a Comprehensive AI-based Framework for Phage Research & Therapy

Lfq Analyst ⭐ 27

The repo for LFQ-Analyst

Cogclassifier ⭐ 27

A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category

Paperblast ⭐ 27

PaperBLAST: find papers about a protein or its homologs

Pdb Benchmarks ⭐ 26

Benchmarking common tasks on proteins in various languages and packages

Protein Vae ⭐ 26

Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies

MONN: a Multi-Objective Neural Network for Predicting Pairwise Non-Covalent Interactions and Binding Affinities between Compounds and Proteins

Long Read Proteogenomics ⭐ 26

A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.

A tool for fast and accurate summarizing of variant calling format (VCF) files

End-to-end deep learning toolkit for predicting protein binding sites and motifs.

Transfer Learning Bner Bioinformatics 2018 ⭐ 25

This repository contains supplementary data, and links to the model and corpora used for the paper: Transfer learning for biomedical named entity recognition with neural networks.

Protein Cascade Cnn Lstm ⭐ 25

Implementation of IJCAI15 cascade cnn and LSTM for protein secondary structure prediction

PDNET: A fully open-source framework for deep learning protein real-valued distances

Fast and flexible ORF finder

Protein Transformer ⭐ 25

Predicting protein structure through sequence modeling

Mmtf Genomics ⭐ 25

Methods for mapping genomic data onto 3D protein structure.

C# Mass Spectrometry Library

Openawsem ⭐ 25

An implementation of the AWSEM coarse-grained protein folding forcefield in OpenMM

Guided Conditional Wasserstein GAN for De Novo Protein Design

Broccoli ⭐ 24

orthology assignment using phylogenetic and network analyses

Cryoem Cvpr2015 ⭐ 24

Source code to accompany the CVPR 2015 paper "Building Proteins in a Day"

Deltavinaxgb ⭐ 24

This is a machine-learning based protein-ligand scoring function.

Deepsurf ⭐ 24

A surface-based deep learning approach for the prediction of ligand binding sites on proteins

Onionnet ⭐ 24

A multiple-layer inter-molecular contact features based deep neural network for protein-ligand binding affinity prediction

Miner Data ⭐ 24

Recognizer ⭐ 24

A tool for domain based annotation with databases from the Conserved Domains Database

Tcgaintegrator ⭐ 24

Python utilities for building integrated views of TCGA data.

Metasanity ⭐ 24

Pipeline for major biological analyses.

Pdbcolor ⭐ 24

Python code to color a PDB structure based on parameters from a multiple sequence alignment

Deepmetabolism ⭐ 24

DeepMetabolism is a deep learning algorithm to predict phenotype from genome sequencing

Expression Atlas

Frustratometer ⭐ 24

Taxon-aware analysis of clustered protein sequences

Genoppi: an open-source software for robust and standardized integration of proteomic and genetic data

Biotrainer ⭐ 24

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

Library for mass spectrometry projects

Deep Network Fusion (deepNF)

Sequence Graph Transform

Gromacs Ramd ⭐ 23

Random Acceleration Molecular Dynamics in GROMACS

iDeep: integrated prediction of RNA-protein binding sites using deep learning

Modelling the Language of Life - Deep Learning Protein Sequences

Propkatraj ⭐ 23

pKa estimates for proteins using an ensemble approach

A common lisp library for representing and processing biological data such as sequences, genes, proteins, etc...

Bioseq.jl ⭐ 23

Julia's package for working on Bioinformatics with DNA, RNA and Protein Sequences

Electrostatics.github.io ⭐ 23

APBS & PDB2PQR - software for biomolecular electrostatics and solvation

Glycosylator ⭐ 23

Framework for the rapid modeling glycans and glycoproteins.

Frag_pele ⭐ 22

FragPELE, a new tool for in silico hit-to-lead drug design, capable of growing a fragment into a core while exploring the protein-ligand conformational space

Geometricus ⭐ 22

A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.

A framework for rapidly mining structural information from the Protein Data Bank

Data visualization library for creating interactive graphs and dashboards for bioinformatics etc.

Fragalysis ⭐ 22

A repo for analysis of ensembles of protein-ligand complexes

Biorender ⭐ 22

An Interactive Cell for the Web(GL)

UniProt Id Mapping through API

Rosalind ⭐ 22

Rosalind Bioinformatics Problems

Biostructmap ⭐ 22

A Python package for mapping sequence aligned data onto protein structures

A domain-specific language that allows the expression or protein interactions that can be used to build executable models.

Symmetry ⭐ 22

🎡 Detect, analyze, and visualize protein symmetry

a python module for generating protein contact maps and distance maps

Infinityflow ⭐ 22

Sequencework ⭐ 22

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

A Graph-Convolutional Deep Neural Network for predicting electrostatic potential surfaces

Assembly of RNA reads to determine the effect of a cancer mutation on protein sequence

Taxonomer_0.5 ⭐ 21

full taxonomer cython repository

Crisprdisco ⭐ 21

CRISPR discovery pipeline

PSIPRED Protein Secondary Structure Predictor

Swiftortho ⭐ 21

A high performance tool to identify orthologs and paralogs across genomes.

Rosalind Solutions ⭐ 21

my solutions to problems from Rosalind.

Git Repo for simulating Boolean Models

Limma Pipeline Proteomics ⭐ 21

LIMMA (an empirical Bayes method) pipeline for two group comparison in a proteomic experiment

Proteinensembles.jl ⭐ 21

Generate and perturb protein structural ensembles using the ExProSE algorithm

Pureclip ⭐ 20

Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data

Download pdb/protein structures from Uniprot id; This script will download related PDB files, extract chains(Optional), remove duplicates(Optional, maybe lost some conformation changed structures) and save as "UniprotID-PDBID-ModelID-ChainID.pdb/cif".

KIF - Key Interactions Finder. A python package to identify the key molecular interactions that regulate any conformational change.

📚 🔬 PIA - Protein Inference Algorithms

This is the repository containing the source code for my Master's thesis research, about predicting drug-target interaction using deep learning.

Vde_metadynamics ⭐ 20

Enhanced protein mutational sampling using time-lagged variational autoencoders

Omicsintegrator2 ⭐ 20

Prize-Collecting Steiner Forests for Interactomes

ProCare: A Point Cloud Registration Approach to Align Protein Cavities

A metagenomic strategy for harnessing the chemical repertoire of the human microbiome

Predicting Drug Protein Interaction using Quasi-Visual Question Answering System

Qfit 3.0 ⭐ 20

qFit: Automated and unbiased multi-conformer models from X-ray and EM maps.

A software-suite to perform multiple protein structure alignment and structure feature extraction.

Lightdock Python2.7 ⭐ 20

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

Dl4distanceprediction2 ⭐ 20

Python 3 implementation of Jinbo Xu's paper "Distance-based protein folding powered by deep learning", PNAS August 20, 2019 116 (34)

Covid19 Taiwan ⭐ 19

Release COVID-19 (SARS-CoV-2) FDA / NHI drugs screening results.

Addon Foldingathome ⭐ 19

Folding@home - Home Assistant Community Add-ons

Sjaracne ⭐ 19

Scalable Tool for Gene Network Reverse Engineering

Cryptosite ⭐ 19

Library for prediction of cryptic binding sites

Related Searches

Python Protein (1,344)

Jupyter Notebook Protein (296)

Protein Pdb (285)

Bioinformatics Protein (282)

R Protein (245)

Interaction Protein (204)

301-400 of 1,092 search results

Privacy | About | Terms | Follow Us On Twitter

Copyright 2018-2024 Awesome Open Source. All rights reserved.