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The Top 23 Python Protein Sequences Open Source Projects

Open source projects categorized as Python Protein Sequences
Categories > Protein Sequences
Proteinnet ⭐ 623
Standardized data set for machine learning of protein structure
most recent commit 3 years 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
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
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
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
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
Finder ⭐ 44
A fully automated gene annotator from RNA-Seq expression data
most recent commit 10 months ago
Protein Bert Pytorch ⭐ 37
Implementation of ProteinBERT in Pytorch
total releases 10most recent commit 3 years ago
Protein Vae ⭐ 26
Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies
most recent commit 4 years ago
Parapred ⭐ 25
Paratope Prediction using Deep Learning
most recent commit 4 years ago
Protein Localization Transformer ⭐ 22
Code for CELL-E: Biological Zero-Shot Text-to-Image Synthesis for Protein Localization Prediction
most recent commit 7 months ago
Sequencework ⭐ 22
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
most recent commit 3 months ago
Swiftortho ⭐ 21
A high performance tool to identify orthologs and paralogs across genomes.
most recent commit a year ago
Propy3 ⭐ 20
A Python 3 version of the protein descriptor package propy
most recent commit 2 years ago
Metagenomic Deepfri ⭐ 19
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
most recent commit 4 months ago
Walk Jump ⭐ 18
Official repository for discrete Walk-Jump Sampling (dWJS)
most recent commit 8 months ago
The 3 Most Depended On Python 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
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 Python Protein Sequences Open Source Projects
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
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
Protein Bert Pytorch ⭐ 37
Implementation of ProteinBERT in Pytorch
total releases 10latest release August 10, 2021most recent commit 3 years ago
Deepcoil ⭐ 16
Fast and accurate prediction of coiled coil domains in protein sequences. ​
total releases 2latest release November 30, 2020most recent commit 2 years ago
Rosettasilenttoolbox ⭐ 6
Python Toolbox For Rosetta Silent Files Processing
total releases 9latest release July 19, 2019most recent commit 4 years ago
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