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The Top 23 Protein Sequences Open Source Projects

Open source projects categorized as Protein Sequences
Categories > Protein Sequences
Proteinnet ⭐ 623
Standardized data set for machine learning of protein structure
most recent commit 3 years ago
Biojava ⭐ 564
📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.
dependent packages 16total releases 56most recent commit 3 months ago
Awesome Protein Representation Learning ⭐ 467
Awesome Protein Representation Learning
most recent commit 3 months ago
Bio_embeddings ⭐ 357
Get protein embeddings from protein sequences
total releases 1most recent commit a year ago
Tape ⭐ 348
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
dependent packages 3total releases 5most recent commit 3 years agopypi tape-proteins} Downloads
Evodiff ⭐ 313
Generation of protein sequences and evolutionary alignments via discrete diffusion models
most recent commit 5 months ago
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18most recent commit 9 months agopypi pypdb} Downloads
Protein Sequence Embedding Iclr2019 ⭐ 203
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
most recent commit 3 years ago
Dnanalyzer ⭐ 122
Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools
most recent commit 5 months ago
Saprot ⭐ 121
Official implementation of SaProt.
most recent commit 3 months ago
Tape Neurips2019 ⭐ 115
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)
most recent commit 3 years ago
Plmc ⭐ 83
Inference of couplings in proteins and RNAs from sequence variation
most recent commit a year ago
Ablang ⭐ 80
AbLang: A language model for antibodies
most recent commit 7 months ago
Deepblast ⭐ 80
Neural Networks for Protein Sequence Alignment
most recent commit 4 months ago
Peptides ⭐ 71
An R package to calculate indices and theoretical physicochemical properties of peptides and protein sequences.
dependent packages 4total releases 21most recent commit 4 months ago
Lambda ⭐ 70
LAMBDA – the Local Aligner for Massive Biological DatA
most recent commit 3 months ago
Mmtf Pyspark ⭐ 64
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
total releases 14most recent commit a year ago
Protflash ⭐ 62
ProtFlash: A lightweight protein language model
total releases 2most recent commit 10 months ago
Flip ⭐ 61
A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design
most recent commit 10 months ago
Pymod ⭐ 61
PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.
most recent commit 4 months ago
Gym Lattice ⭐ 52
An HP 2D Lattice Environment with a Gym-like API for the Protein Folding Problem
most recent commit 2 years ago
Dmpfold ⭐ 51
De novo protein structure prediction using iteratively predicted structural constraints
most recent commit 2 years ago
Protr ⭐ 50
🧬 Toolkit for generating various numerical features of protein sequences
dependent packages 2total releases 22most recent commit 6 months ago
The 7 Most Depended On Protein Sequences Open Source Projects
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18latest release July 24, 2023most recent commit 9 months agopypi pypdb} Downloads
Peptides ⭐ 71
An R package to calculate indices and theoretical physicochemical properties of peptides and protein sequences.
dependent packages 4total releases 21latest release May 14, 2021most recent commit 4 months ago
Protr ⭐ 50
🧬 Toolkit for generating various numerical features of protein sequences
dependent packages 2total releases 22latest release October 30, 2023most recent commit 6 months ago
Molart ⭐ 31
MOLeculAR structure annoTator
dependent packages 2total releases 39latest release November 14, 2022most recent commit 7 months agonpm molart} Downloads
Cazy_webscraper ⭐ 10
Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
dependent packages 1total releases 29latest release January 16, 2023most recent commit 3 months agopypi cazy-webscraper} Downloads
The 10 Latest Releases In Protein Sequences Open Source Projects
Protr ⭐ 50
🧬 Toolkit for generating various numerical features of protein sequences
dependent packages 2total releases 22latest release October 30, 2023most recent commit 6 months ago
Pypef ⭐ 8
PyPEF – Pythonic Protein Engineering Framework
total releases 16latest release August 17, 2023most recent commit 3 months ago
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18latest release July 24, 2023most recent commit 9 months agopypi pypdb} Downloads
Protflash ⭐ 62
ProtFlash: A lightweight protein language model
total releases 2latest release July 03, 2023most recent commit 10 months ago
Gotranseq ⭐ 11
convert nucleic sequence in protein sequence
total releases 6latest release February 02, 2023most recent commit a year ago
Cazy_webscraper ⭐ 10
Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
dependent packages 1total releases 29latest release January 16, 2023most recent commit 3 months agopypi cazy-webscraper} Downloads
Molart ⭐ 31
MOLeculAR structure annoTator
dependent packages 2total releases 39latest release November 14, 2022most recent commit 7 months agonpm molart} Downloads
Bio_embeddings ⭐ 357
Get protein embeddings from protein sequences
total releases 1latest release February 14, 2022most recent commit a year ago
Seqr ⭐ 8
fast and comprehensive k-mer counting package
total releases 1latest release September 15, 2021most recent commit 3 years ago
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