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protein-sequence

Here are 50 public repositories matching this topic...

aqlaboratory / proteinnet

Standardized data set for machine learning of protein structure

machine-learning deep-learning proteins protein-structure dataset protein-sequence

Updated Nov 18, 2020
Python

tbepler / protein-sequence-embedding-iclr2019

Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019

deep-learning protein-structure pytorch recurrent-neural-networks language-model protein-sequence protein-embedding protein-modeling protein-representation-learning

Updated Jun 16, 2021
Python

westlake-repl / SaProt

Saprot: Protein Language Model with Structural Alphabet (AA+3Di)

protein-structure protein representation-learning protein-sequence predicted-structures pretraining structure-aware protein-language-model alphafold2 foldseek structural-alphbet protein-llm

Updated Nov 7, 2024
Python

psipred / DMPfold

De novo protein structure prediction using iteratively predicted structural constraints

deep-learning protein-structure resnet protein-sequence protein-structure-prediction

Updated Jan 30, 2022
C

MartinThoma / propy3

A Python 3 version of the protein descriptor package propy

python bioinformatics python3 protein-sequence dipeptide-composition-descriptors protein-descriptor geary-autocorrelation-descriptors

Updated Feb 8, 2023
Python

jaumebonet / RosettaSilentToolbox

Python Toolbox For Rosetta Silent Files Processing

science data-visualization data-analysis protein-design protein-sequence

Updated Aug 2, 2021
Python

bhi-kimlab / DeepFam

Deep learning based alignment-free method for protein family modeling and prediction

deep-learning convolutional-neural-networks alignment-free protein-sequence

Updated Jul 31, 2018
Python

proteinsolver

ostrokach / proteinsolver

Graph neural network for generating novel amino acid sequences that fold into proteins with predetermined topologies.

bioinformatics structural-biology protein-structure protein protein-design protein-sequence graph-neural-networks

Updated Mar 24, 2021
Jupyter Notebook

cusbg / MolArt

MOLeculAR structure annoTator

visualization pdb protein-structure uniprot protein-sequence sequence-annotations protvista litemol

Updated Oct 2, 2024
JavaScript

Shen-Lab / gcWGAN

Guided Conditional Wasserstein GAN for De Novo Protein Design

protein-structure protein generative-model generative-adversarial-networks protein-design protein-sequence

Updated Feb 23, 2021
Roff

jendelel / PrankWebApp

Web application for protein-ligand binding sites analysis and visualization

visualization web pdb protein-structure web-application conservation protein webapp analyses protein-ligand-interactions ligand protein-homology protein-sequence conservation-scores

Updated Jan 9, 2023
JavaScript

COVID-Genome-Computational-Analysis

0xpranjal / COVID-Genome-Computational-Analysis

Computational predictions of protein attributes associated with COVID-19 using Data Science techniques

spike dna healthcare rna lzma sequence compressed kolmogorov-complexity protein-sequence 19 kolmogorov-smirnov glycoprotein sars covid sars-cov-2 rna-sequence covid-genome-ds complete-genome-analysis

Updated Jan 7, 2021
Jupyter Notebook

chao1224 / ProteinDT

protein-structure protein drug-design protein-design protein-sequence ai4science llm foundation-model large-language-model protein-editing

Updated Jul 20, 2024
Python

LPDI-EPFL / rstoolbox

Python Toolbox For Rosetta Silent Files Processing

science data-visualization data-analysis protein-design protein-sequence

Updated May 23, 2019
Python

haichengyi / bioseq2vec

BioSeq2vec: learning deep representation of biological sequences using LSTM Encoder-Decoder

lstm sequence-to-sequence representation-learning mirna lncrna biological-sequences encoder-decoder protein-sequence circrnas rna-sequence ncrna-protein-interactions

Updated Aug 2, 2024
Python

ISDementyev / pmUE

pmUE (Protein Modelling Unreal Engine) - a repo for constructing a molecule visualizer plugin in Unreal

cpp pdb protein-structure virtual-reality protein unreal-engine molecules protein-sequence pdb-files molecular-modeling protein-modeling molecule-visualization molecule-viewer

Updated Jul 10, 2024
C++

changlabtw / MS2CNN

convolutional-neural-networks protein-sequence ms-spectrum

Updated Apr 19, 2021
Python

aziele / pairwise-sequence-alignment

A Python module to calculate alignment between two sequences using EMBOSS' needle, stretcher, and water

smith-waterman needleman-wunsch needle water global-alignment sequence-alignment emboss protein-sequence pairwise-alignment local-alignment nucleotide-sequence

Updated Oct 30, 2024
Python

PNNL-Comp-Mass-Spec / protein-coverage-summarizer

Computes the percent of the residues in each protein sequence that have been identified, based on a list of identified peptides. A graphical user interface (GUI) is provided to allow the user to select the input files, set the options, and browse the coverage results.

protein-sequences fasta mass-spectrometry protein-sequence

Updated Jul 27, 2024
C#

ISYSLAB-HUST / ProtFlash

ProtFlash: A lightweight protein language model

bioinformatics pretrained-models protein-sequence protein-representation-learning protein-embeddings protein-language-model

Updated Mar 2, 2024
Python

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