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Search results for protein
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1,092 search results found
Biopython
⭐
3,918
Official git repository for Biopython (originally converted from CVS)
Esm
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2,577
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
Corona
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2,441
Reverse engineering SARS-CoV-2
Awesome Deepbio
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1,467
A curated list of awesome deep learning applications in the field of computational biology
Machine Learning For Proteins
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1,274
Listing of papers about machine learning for proteins.
Educational
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1,112
Prottrans
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938
ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.
Graphein
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932
Protein Graph Library
Diamond
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900
Accelerated BLAST compatible local sequence aligner.
Deeppurpose
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826
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
Paddlehelix
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729
Bio-Computing Platform Featuring Large-Scale Representation Learning and Multi-Task Deep Learning “螺旋桨”生物计算工具集
Molecularnodes
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729
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
Proteinnet
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623
Standardized data set for machine learning of protein structure
Protein
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597
🥚 An Android App for Dribbble
Awesome Omics
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536
A collection of awesome things regarding all omics.
Biotite
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515
A comprehensive library for computational molecular biology
Modeling Examples
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487
Gurobi modeling examples
Hh Suite
⭐
429
Remote protein homology detection suite.
Pyfaidx
⭐
427
Efficient pythonic random access to fasta subsequences
Prokka
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415
⚡ ♒ Rapid prokaryotic genome annotation
Ensembl Vep
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410
The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
Prospr
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407
ProSPr: Protein Structure Prediction
Pyrosetta.notebooks
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399
Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design
Foldingdiff
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393
Diffusion models of protein structure; trigonometry and attention are all you need!
Progen
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373
Official release of the ProGen models
Bakta
⭐
365
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Prody
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364
A Python Package for Protein Dynamics Analysis
Bio_embeddings
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357
Get protein embeddings from protein sequences
Tape
⭐
348
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
Molly.jl
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344
Molecular simulation in Julia
Equibind
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321
EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein
Plip
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320
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
Pdb Tools
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319
A dependency-free cross-platform swiss army knife for PDB files.
Braker
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293
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes
Prolif
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286
Interaction Fingerprints for protein-ligand complexes and more
Rgi
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283
Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.
Provis
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272
Official code repository of "BERTology Meets Biology: Interpreting Attention in Protein Language Models."
Protein
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270
💊 Protein is an IntelliJ Plugin to generate Kotlin code for Retrofit 2 and RxJava 2 based on a Swagger definition
Rgn
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263
Recurrent Geometric Networks for end-to-end differentiable learning of protein structure
Pgap
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263
NCBI Prokaryotic Genome Annotation Pipeline
Interproscan
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259
Pypdb
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258
A Python API for the RCSB Protein Data Bank (PDB)
Sidechainnet
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256
An all-atom protein structure dataset for machine learning.
Pygeno
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242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Kaiju
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236
Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
Fpocket
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236
fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation. The platform is suited for the scientific community willing to develop new scoring functions and extract pocket descriptors on a large scale level. fpocket is distributed as free open source software. If you are interested in integrating fpocket in an industrial setting and require official support, please contact Discngine (www.discngine.com).
Lightdock
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234
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Pv
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233
WebGL protein viewer
Hgvs
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226
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
Propka
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223
PROPKA predicts the pKa values of ionizable groups in proteins and protein-ligand complexes based in the 3D structure.
Jupyter_dock
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215
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.
Pronto
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212
A Python frontend to (Open Biomedical) Ontologies.
Graphia
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209
A visualisation tool for the creation and analysis of graphs
Ribbon
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208
Ribbon diagrams of proteins in #golang.
Protein Sequence Embedding Iclr2019
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203
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
Masif
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196
MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
P2rank
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193
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.
Seqviz
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191
a JavaScript DNA, RNA, and protein sequence viewer
Openvectoreditor
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189
Teselagen's Open Source Vector/Plasmid Editor Component
Moleculekit
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183
MoleculeKit: Your favorite molecule manipulation kit
Imgthla
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178
Github for files currently published in the IPD-IMGT/HLA FTP Directory hosted at the European Bioinformatics Institute
Evcouplings
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177
Evolutionary couplings from protein and RNA sequence alignments
Openprotein
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161
A PyTorch framework for prediction of tertiary protein structure
Dspp Keras
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160
Protein order and disorder data for Keras, Tensor Flow and Edward frameworks with automated update cycle made for continuous learning applications.
Deepfri
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156
Deep functional residue identification
Diann
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152
DIA-NN - a universal automated software suite for DIA proteomics data analysis.
Awesome Ai Based Protein Design
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146
A collection of research papers for AI-based protein design
Deeprank
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145
This repository has been integrated in https://github.com/DeepRank/deeprank2
Ggmsa
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144
🚥 Visualizing publication-quality multiple sequence alignment using ggplot2
Metaeuk
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142
MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
Unirep
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140
UniRep model, usage, and examples.
Icn3d
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135
web-based protein structure viewer and analysis tool interactively or in batch mode
Dtinet
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135
A Network Integration Approach for Drug-Target Interaction Prediction
Tcga_example
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135
Bnt162b2
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134
Markdown version of Reverse Engineering the source code of the BioNTech/Pfizer SARS-CoV-2 Vaccine
Netmf
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134
Network Embedding as Matrix Factorization: Unifying DeepWalk, LINE, PTE, and node2vec
Pecanpy
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133
A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vec
Trrosetta
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131
A package to predict protein inter-residue geometries from sequence data
Pb Metagenomics Tools
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127
Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
Das_tool
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124
DAS Tool
Saprot
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121
Official implementation of SaProt.
Compbiodatasetsformachinelearning
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120
A Curated List of Computational Biology Datasets Suitable for Machine Learning
Mol Instructions
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116
Mol-Instructions is a Large-Scale Biomolecules Instruction Dataset for Large Language Models.
Tape Neurips2019
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115
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)
Dssp
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113
Application to assign secondary structure to proteins
Flexs
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112
Fitness landscape exploration sandbox for biological sequence design.
Bio4j
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112
Bio4j abstract model and general entry point to the project
Biojava Tutorial
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111
📖📚An introductory tutorial for BioJava
Proteinfer
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110
Deep networks for protein functional inference
Run_dbcan
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109
Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.
Torchproteinlibrary
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107
PyTorch library of layers acting on protein representations
Buddysuite
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105
Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
Awesome Bio Datasets
⭐
105
awesome-bio-datasets
Philosopher
⭐
104
A complete toolkit for shotgun proteomics data analysis
Deeplearning In Bioinformatics
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104
For anyone who are eager to applying deep learning in bioinformatics!
Covid 19 Community
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103
Community effort to build a Neo4j Knowledge Graph (KG) that links heterogeneous data about COVID-19
Beautiful Atoms
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102
Python module for drawing and rendering beautiful atoms and molecules using Blender.
Nightingale
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102
Data visualisation web components for the life sciences.
Famsa
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101
Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
Seqvec
⭐
101
Modelling the Language of Life - Deep Learning Protein Sequences
Related Searches
Python Protein (1,344)
Jupyter Notebook Protein (296)
Protein Pdb (285)
Bioinformatics Protein (282)
R Protein (245)
Interaction Protein (204)
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