protein-sequences 开源项目推荐（391 个）

songlab-cal /tape

蛋白质嵌入评估任务（TAPE），这是一组五个生物学相关的半监督学习任务，分布在蛋白质生物学的不同领域。

microsoft /evodiff

Generation of protein sequences and evolutionary alignments via discrete diffusion models

LirongWu /awesome-protein-representation-learning

Awesome Protein Representation Learning

biojava /biojava

📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

sacdallago /bio_embeddings

Get protein embeddings from protein sequences

williamgilpin /pypdb

A Python API for the RCSB Protein Data Bank (PDB)

prescient-design /lobster

Lbster: Language models for Biological Sequence Transformation and Evolutionary Representation

oxpig /AbLang

AbLang: A language model for antibodies

pengzhangzhi /faplm

FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models

lucidrains /protein-bert-pytorch

Implementation of ProteinBERT in Pytorch

J-SNACKKB /FLIP

A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

rcedgar /usearch12

Open-source usearch

flatironinstitute /deepblast

Neural Networks for Protein Sequence Alignment

debbiemarkslab /plmc

Inference of couplings in proteins and RNAs from sequence variation

songlab-cal /tape-neurips2019

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

nf-core /proteinfold

Protein 3D structure prediction pipeline

Bindwell /APPT

Affinity Protein-Protein Transformers—State of the art protein-protein binding affinity in seconds!

OpenProteinAI /PoET

Inference code for PoET: A generative model of protein families as sequences-of-sequences

tbepler /prose

Multi-task and masked language model-based protein sequence embedding models.

dosorio /Peptides

An R package to calculate indices and theoretical physicochemical properties of peptides and protein sequences.