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Siamdiff ⭐ 11

Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)

Md Alaninedipeptide ⭐ 11

Molecular Dynamics Simulation of Alanine Dipeptide and Dihedral Angle Analysis

Exploring Isoform-specific interactions

Ilc_scrnaseq ⭐ 11

Analysis of single cell RNA-seq data from innate lympoid cells

Sars Cov 2 Public ⭐ 11

Popscomp ⭐ 11

Solvent Accessible Surface Areas of Biomolecules and their Complexes

Neural Bacteriocin Identifier - a recurrent neural network based software to predict bacteriocins from protein sequences.

Cazy Parser ⭐ 11

A way to extract specific information from CAZy

Datanator ⭐ 11

Toolkit for discovering and aggregating data for whole-cell modeling

pdbx is a parser module in python for structures of the protein data bank in the mmcif format

Lintools ⭐ 11

Python script that creates 2D protein-ligand interaction images

Protein-Ligand Interaction Fingerprints

iCount, protein-RNA interaction analytics

DeepSig - Predictor of signal peptides in proteins based on deep learning

Unilanguage ⭐ 11

Homology reduced UniProt, train-/valid-/testsets for language modeling

Pyinteraph ⭐ 11

A software research tool for the analysis of structural communication in protein ensembles

Monografia ⭐ 11

🎓 Monografia / TCC / Sistemas de Informação

Allopred ⭐ 11

Predict allosteric pockets on proteins

Diffacto ⭐ 11

PHOsphoproteomic dissecTiOn using Networks

Msmexplorer ⭐ 11

MSMExplorer is a visualization system for markov state models for protein folding networks

ATTRACT program suite for macromolecular docking (protein-protein, protein-nucleic acid, protein-peptide)

Neoantigens ⭐ 11

🏺 Exploring novel tumor epitope identification

Pathlinker ⭐ 11

Connect the dots in networks.

A simple protein molecular visualisation app implementing with Apple Swift for iOS. Provides balls and balls & sticks display mode in CPK colours.

Deeprotein ⭐ 11

GitHub repository for "Leveraging Implicit Knowledge in Neural Networks for Functional Dissection and Engineering of Proteins"

Message Passing Neural Network ⭐ 11

Pytorch implementation of a message passing neural network with RNN sub-units

Alignment-free Protein Motif Miner

Mmtf Proteomics ⭐ 11

Methods for mapping proteomics data on 3D protein structure.

Concordia_workshop_biopython ⭐ 11

Pratical to learn basic Biopython usage

Deep Learning Mhci ⭐ 10

For MHC-I protein-peptide binding predictions: Deep Learning model with CNN and Snakemake workflow

Mode Task ⭐ 10

PCA and normal mode analysis of proteins

Self-similar visualization of many-body wavefunctions (and also: time series, DNA, proteins).

Deep proteome inference from peptide profiles

Detects hotspot regions for somatic mutations in 3D protein structures

kClust is a fast and sensitive clustering method for the clustering of protein sequences. It is able to cluster large protein databases down to 20-30% sequence identity. kClust generates a clustering where each cluster is represented by its longest sequence (representative sequence).

Bayesian Active Learning for Optimization and Uncertainty Quantification with Applications in Protein Docking

Gomap Singularity ⭐ 10

GOMAP-Singularity is the containerized version of GOMAP

Ejplab_computational_projects ⭐ 10

Repository of all EJP lab computational projects

Microbialgenomicsscripts ⭐ 10

A selection of short scripts for analyzing microbial genomes

A method for identifying deleterious protein variation.

Waterdock 2.0 ⭐ 10

WaterDock-2.0 implementation with Akshay Sridhar

A bare metal Python library for building and manipulating protein molecular structures

Protein Feature Extraction ⭐ 10

Python code to extract features from Protein sequences for Machine Learning/Deep Learning

Command line tool to generate Kripo fingerprints from Protein Data Bank files.

Analysis and Visualization of Ribosome Profiling Data

Sequence Database Curator ⭐ 10

This program dereplicates and/or filter nucleotide and/or protein database from a list of names or sequences (by exact match).

Activedriverdb ⭐ 10

Bioinformatics modules for Perl6 designed for parallel use.

Bondpack ⭐ 10

A collection of PyMOL plugins to visualize atomic bonds.

Programming For Bioinformatics ⭐ 10

Kaggle Protein Image Classification ⭐ 10

This is the solution for Kaggle human protein classification competition.

Vegtastic ⭐ 10

Collaborative vegan/vegetarian recipe collection

SWift and Optimized Recognition of protein Domains

Deep learning based alignment-free method for protein family modeling and prediction

Protvista Uniprot ⭐ 10

The ProtVista tool for the UniProt website

Cazy_webscraper ⭐ 10

Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.

Synthaser ⭐ 10

Parse NCBI CD-search results to find and visualise the domain architecture of secondary metabolite synthases

A package for making MuE observation models in Edward2.

Mgpfusion ⭐ 10

mGPfusion is a Gaussian process based method for predicting stability changes upon single and multiple mutations of proteins that complements the available experimental data with large amounts of simulated data.

Smilesvecproteinrepresentation ⭐ 10

Lncadeep ⭐ 10

LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning

🎓 BioNet / TCC / Sistemas de Informação

Viroblaststandalone ⭐ 10

ViroBLAST standalone package

Ijcai2016 ⭐ 9

This repository is for the replication of our published paper "Protein Secondary Structure Prediction Using Cascaded Convolutional and Recurrent Neural Networks" on IJCAI2016. Please consult and consider citing the following papers:

Huri_paper ⭐ 9

Code for the analyses in the human reference interactome paper.

Ppi_graphkernel ⭐ 9

all-paths graph kernel for protein-protein interaction extraction

isobar - R library for the Analysis and quantitation of isobarically tagged MSMS proteomics data

Proteinfeatureview ⭐ 9

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

Pyrosettabook ⭐ 9

Musitedeep_web ⭐ 9

This repository contains the stand-alone tool for MusiteDeep server

Fragalysis Api ⭐ 9

A python API for fragalysis (fragalysis.diamond.ac.uk)

Biomedical Corpora ⭐ 9

A collection of annotated biomedical corpora, which can be used for training supervised machine learning methods for various tasks in biomedical text-mining and information extraction.

covid19 exploration

Visbol Js ⭐ 9

SBOLv rendering in JavaScript

Multi-Channel Deep Chemogenomic Modeling of Receptor-Ligand Binding Affinity Prediction for Drug Discovery

An interactive visual simulator for distance-based protein folding

Generates consistent PSSM and/or PDB files for protein-protein complexes

Deepprime2sec ⭐ 9

gromacs(Protein-Ligand Complex)

Reactionflow ⭐ 9

ReactionFlow is an application for visualizing biological pathways, emphasizing "causality analysis" tasks.

Farseer Nmr ⭐ 9

A software suite for automatic treatment, analysis and plotting of large and multivariable datasets of bioNMR peaklists.

Py_protein_utils ⭐ 9

Python utilities for handling Rosetta output and PDB files

Coursera Bioinformatics ⭐ 9

My solution to Bioinformatics Specialization (Finding Hidden Messages in DNA; Genome Sequencing; Comparing Genes, Proteins, and Genomes; Molecular Evolution; Genomic Data Science and Clustering; Finding Mutations in DNA and Proteins; Bioinformatics Capstone: Big Data in Biology)

Secretsanta ⭐ 9

flexible pipelines for scalable secretome prediction, R package

An open source personalized peptide vaccine design against the Wuhan Coronavirus 2019-nCoV.

Deepmetapsicov ⭐ 9

Deep ResNet-based protein contact prediction

Jekyll Scholmd ⭐ 9

Auto-linking of scholarly identifiers in markdown files

Code for reproducing results from the paper "RNA velocity and protein acceleration from single-cell multiomics experiments."

Phylostratigraphy ⭐ 9

Pipeline for Phylostratigraphy

customized dash NGL viewer

Srassembler ⭐ 9

Selective and Recursive local Assembler

Cmod.django ⭐ 9

CMOD Wikidata App built on Django Framework for editing Wikidata with existing GeneWIki bot code

NetICS: network-based integration of multi-omics data for prioritizing cancer genes

Dms2structure ⭐ 9

Scripts for "Determining protein structures using deep mutagenesis", Schmiedel & Lehner, Nature Genetics, 2019

Pangenome_graphs ⭐ 9

Constructing pan genome graphs from "protein family" assignments

Scienzalist ⭐ 9

Awesome list di risorse e link di scienza

Related Searches

Python Protein (1,344)

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Interaction Protein (204)

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