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Search results for protein

protein x
1,092 search results found
Confold ⭐ 7
Contact-based protein structure prediction
Metakappa ⭐ 7
A meta-language for Kappa generation that allows the creation of protein hierarchies and the concise representation of protein-interaction rules. These structures can then be expanded into Kappa.
E2p2 ⭐ 7
Chigp ⭐ 7
Capture Hi-C gene prioritiser
Anhydeg ⭐ 7
Database of anaerobic hydrocarbon degradation genes used for functional gene searching of metagenome data sets
Smiles Neural Network ⭐ 7
A neural network for predicting properties of molecules based on their SMILES representation
Famplex ⭐ 7
Namespace encoding hierarchical relationships between proteins, protein families, and protein complexes.
Abchemoinformatics ⭐ 7
🆎 ABC of chemoinformatics
Nlp_biomedical Event Extraction ⭐ 7
Confold2 ⭐ 7
Improved ab initio protein structure reconstruction
Thermoprot ⭐ 7
Predict protein thermostability with ML
Trgated ⭐ 7
Survival Analysis for Protein-Level TCGA Analysis
Cdeepbind ⭐ 7
cDeepbind: A context sensitive deep learning model of RNA-protein binding
Nf Workflows ⭐ 7
Repository of Nextflow+BioContainers workflows
Deeploc ⭐ 7
Predicting protein subcellular localization using deep learning
Modulomics ⭐ 7
Infers cancer driver modules from DNA, RNA, PPI and regulatory network.
Modellernotebooks ⭐ 7
Running Modeller for Protein Modelling using Python and Jupyter Notebooks
Convolutional Generative Stochastic Network For Protein Secondary Structure Prediction ⭐ 7
An implementation for Deep Supervised and Convolutional Generative Stochastic Network for Protein Secondary Structure Prediction, https://arxiv.org/abs/1403.1347
Cathpy ⭐ 7
Python Bioinformatics Toolkit for CATH (Protein Classification Database @ UCL)
Consurf ⭐ 7
Evolutionary conservation estimation of residues or nucleotides
E Driver ⭐ 7
This repository contents a script to run e-Driver as well as the necessary files to reproduce the results presented in the paper describing the algorithm.
G3lollipop.js ⭐ 7
Lollipop-diagram to visualize genomic mutations
Recipenutritioncalculator ⭐ 7
A free, simple, recipe nutrition calculator made with Javascript!
Can Ai Do ⭐ 7
Predicting or pretending: artificial intelligence for protein-ligand interactions lack of sufficiently large and unbiased datasets
Transite ⭐ 7
RNA-binding protein motif analysis
Aposteriori ⭐ 7
DNN based protein design.
Pcetk ⭐ 7
pDynamo-based toolkit for protonation state calculations in proteins
Ligandnet ⭐ 7
LigandNet, a tool which combines different machine learning models into one platform for the prediction of the state of the ligands either actives or inactives for a particular proteins.
Moltimate Backend ⭐ 7
A protein active site alignment tool
Capnetprotstruct ⭐ 7
Capsule Networks for improving protein secondary structure prediction accuracy
Effectorp 2.0 ⭐ 7
Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0
Chisurf ⭐ 7
Global analysis platform for fluorescence data
G2s ⭐ 7
A standalone component to provide mappings between protein sequence positions and PDB 3D protein structure models
Cryoid ⭐ 7
cryoID identifies the protein(s) in unknown near-atomic resolution cryoEM density maps from a pool of candidate proteins.
Proteins ⭐ 7
A primer for JavaScript libraries and frameworks development.
Secondary_structure_detection ⭐ 7
Protein secondary structure detection based on unsupervised word segmentation
Pyemap ⭐ 7
Python package aimed at automatic identification of electron and hole transfer pathways in proteins.
Bipspi ⭐ 7
Partner specific prediction of protein binding sites
Protein Reconstruction ⭐ 7
Learning to recover orientations from projections in single-particle cryo-EM
Paramagpy ⭐ 7
Calculating paramagnetic NMR effects in proteins
Shd_code ⭐ 7
Tmt Integrator ⭐ 7
A tool integrates channel abundances from multiple TMT samples and exports a general report for downstream analysis.
Biocreative Vi Track 5 Chemprot ⭐ 7
BioCreative VI — Track 5: text mining chemical–protein interactions
Timearcs ⭐ 7
Directed_evolution ⭐ 7
Protein Design by Machine Learning guided Directed Evolution
Bifusion ⭐ 7
Chordomics ⭐ 7
Interactive visualisation and data annotation for meta-omics data
Voronoia ⭐ 7
Voronoia - Protein packing calculation
Haskell Pdb Utilities ⭐ 7
A collection of modules for dealing with Protein Data Bank files
Awe ⭐ 7
Accelerated Weighted Ensemble (AWE) provides a Python library for adaptive sampling of molecular dynamics.
Bionode Seq ⭐ 7
Module for DNA, RNA and protein sequences manipulation
Martini_openmm ⭐ 7
Nextprot Viewers ⭐ 7
neXtProt viewers - From SIB CALIPHO group; neXtProt project
Bbcontacts ⭐ 7
Prediction of beta-strand pairing from direct coupling patterns
Protein_complex_maps_public ⭐ 7
Public repository for building and analyzing protein complex maps
Freedomsquares ⭐ 7
Saint2 ⭐ 7
The official repository for the cotranslational protein structure prediction software SAINT2
Amylogram ⭐ 7
Prediction of amyloid proteins
Jpredapi ⭐ 7
Python library and CLI for submitting jobs to JPred - A Protein Secondary Structure Prediction Server
Spada ⭐ 7
⚔️Find splicing-led, functional changes of the proteome.
Protein Elixir ⭐ 7
Multi-platform remote procedure call (RPC) system based on Protocol Buffers. Package for Elixir.
Chexmix ⭐ 7
ChExMix: the ChIP-exo mixture model
Munk ⭐ 7
A MUlti-species Network Kernel algorithm to embed proteins from a target network into a source network, creating cross-species representations for various comparative and predictive tasks
Miml Dml ⭐ 7
MIML-DML : Multi-Instance Multi-Label Distance Metric Learning for Genome-Wide Protein Function Prediction
Fit3d ⭐ 7
🔍 Fit3D - An application for template-based detection of small structural motifs in protein structures and macromolecular structure data.
Peppy ⭐ 7
A VR app which allows creation and manipulation of dynamic models of polypeptides. Focus is fun and learning.
Gmx_performance_on_hpc ⭐ 6
Gromacs performance benchmarking on different HPC platforms
Multiprot ⭐ 6
Model proteins with multiple domains
Cancermirnome ⭐ 6
CancerMIRNome - an interactive analysis and visualization database for miRNome profiles of human cancer
Tisigner Reactjs ⭐ 6
TISIGNER: Unleash the power of synthetic biology
Hgt Finder ⭐ 6
Program for finding horizontal gene transfer using BLAST result
Phd3 ⭐ 6
QM/DMD engine. Protein Hybrid Discrete Dynamics/DFT
Gpu Bsw ⭐ 6
Protiler ⭐ 6
ProTiler method for the analysis and visualization of CRISPR screens with tiling-sgRNA design
Apta Mcts ⭐ 6
Supporting code for the paper "Predicting aptamer sequences that interact with target proteins using an Aptamer-Protein Interaction classifier and a Monte-Carlo tree search approach". Please issue for any errors or helps.
Pyprot ⭐ 6
A set of libraries for aligning, profiling, and predicting the structure of proteins
Exmachina ⭐ 6
Sequence aligner for accurate template-based protein structure prediction
Md_python ⭐ 6
The repository with the lecture and tutorial for CPS teaching grant
Scppin ⭐ 6
Functional module detection through integration of single-cell RNA sequencing data with protein–protein interaction networks
Cu Tsp ⭐ 6
Implementation of Accurate Protein Structure Prediction by Embeddings and Deep Learning Representations
Bacphlip ⭐ 6
A python library for predicting phage lifestyle based on genome sequence
Kripodb ⭐ 6
Library to interact with Kripo fragment, fingerprint and similarity data files.
Bindkin ⭐ 6
A structural benchmark to measure point mutations’ impact on kinase-ligand interactions
Sm_assemblies ⭐ 6
Analysis of protein coding exons in single molecule assemblies
Juchmme ⭐ 6
Java Utility for Class Hidden Markov Models and Extensions
Ripper ⭐ 6
Searching for precursor peptide genes for ribosomally synthesized and post-translationally modified peptides (RiPPs).
Structureanalyzer ⭐ 6
A program analyzing 3D protein structures from PDB to generate 2D binding motifs
Protein Recognition Index ⭐ 6
Protein Recognition Index (PRI), measuring the similarity between H-bonding features in a given complex (predicted or designed) and the characteristic H-bond trends from crystallographic complexes
Skipgnn ⭐ 6
SkipGNN: Predicting Molecular Interactions with Skip-Graph Networks
Prozor ⭐ 6
Determine minimal Protein set given list of peptide protein mappings and various weighting functions
Dockcov2 ⭐ 6
A molecular docking pipeline for the drug database against SARS-CoV2
Compath ⭐ 6
A web application for exploring, analyzing, and curating pathway databases
Tpp2d ⭐ 6
Detection of ligand-protein interactions from thermal proteome profiles (DLPTP) by FDR-controlled analysis of 2D-TPP experiments
Decrippter ⭐ 6
Genome mining tool for novel RiPP BGCs
Gene_prediction_pipeline ⭐ 6
Gene Prediction using MAKER, CEGMA, SNAP, GENEMARK & AUGUSTUS
Dnss ⭐ 6
Deep learning networks for protein secondary structure prediction
Rnpfind ⭐ 6
Bioinformatics tool for exploring RNA-Protein interactions
Rotamerconvolvemd ⭐ 6
Analysis of molecular dynamics trajectories or conformational ensembles in terms of spin-label distances as probed in double electron-electron resonance (DEER) experiments.
Splicevista ⭐ 6
Splice variant analysis in shotgun proteomics data
Tsppi ⭐ 6
Analysis of tissue-specific protein-protein interaction networks
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