protein-function-prediction

There are 9 repositories under protein-function-prediction topic.

kexinhuang12345 / DeepPurpose
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
drug-repurposing deep-learning drug-target-interactions toolkit covid19 virtual-screening drug-discovery ppi ddi dti-prediction drug-property-prediction protein-function-prediction repurposing-drugs qsar side-effects drug-drug-interaction protein-protein-interaction drug-target-interaction bioinformatics
Language:Jupyter Notebook 905
zjunlp / OntoProtein
[ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
protein-protein-interaction gene-ontology protein-pretraining protein-function-prediction protein-structure-prediction knowledge-graph protein ontoprotein bert nlp pytorch pretrained-models pretraining iclr iclr2022
Language:Python 133
samsinai / VAE_protein_function
Protein function prediction using a variational autoencoder
generative-model keras machine-learning protein-function-prediction python vae variational-autoencoder
Language:Jupyter Notebook 85
J-SNACKKB / FLIP
A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design
protein protein-sequences protein-design representation-learning protein-fitness-prediction protein-function-prediction
Language:Jupyter Notebook 83
PedroMTQ / mantis
A package to annotate protein sequences
protein-annotation bioinformatics hmmer mantis protein-function-prediction
Language:Python 51
XinshaoAmosWang / DeepCriticalLearning
Deep Critical Learning. Implementation of ProSelfLC, IMAE, DM, etc.
bert-transformer convolutional-neural-networks deep-learning image-classification protein-function-prediction pytorch protein-transformer protein-classification protein-design protein-localization
Language:Python 31
yourh / DeepGraphGO
DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction
protein-function-prediction
Language:Python 31
bioinf-mcb / Metagenomic-DeepFRI
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
genomics mmseqs protein-function-prediction protein-sequences protein-structure
Language:Python 27
psipred / FFPredGAN
Improving protein function prediction with synthetic feature samples created by generative adversarial networks
generative-adversarial-network protein-function-prediction data-augmentation synthetic-data
Language:Python 19
idrblab / AnnoPRO
Feature map and function annotation of Proteins
blastp deep-learning feature-map protein-function-prediction
Language:Python 18
microsoft / protein-uq
Benchmarking uncertainty quantification methods on proteins.
active-learning protein protein-design protein-fitness-prediction protein-function-prediction protein-sequences uncertainty-estimation uncertainty-neural-networks uncertainty-quantification
Language:Shell 17
amirmohan / epistatic-net
Epistatic Net is an algorithm which allows for spectral regularization of deep neural networks to predict biological fitness functions (e.g., protein functions).
deep-learning epistasis protein-function-prediction sparse-recovery
Language:Jupyter Notebook 15
idrblab / PFmulDL
Multi-label protein function annotation
protein protein-families protein-function protein-function-prediction
Language:Python 7
kiharalab / Domain-PFP
Domain-PFP is a self-supervised method to predict protein functions from the domains
protein-function-prediction
Language:Jupyter Notebook 7
psipred / STRING2GO
Protein function prediction based on protein-protein interaction network topology and deep maxout neural networks
deep-neural-networks network-embedding protein-function-prediction representation-learning
Language:Python 6
primaryodors / primarydock
PrimaryOdors.org molecular docker.
gpcr molecular-docking molecular-viewer molecular-visualization olfaction protein-function-prediction protein-ligand-interactions side-chain-orientation path-based-docking side-chain-flexion
Language:C++ 5
usadellab / prot-scriber
Assigns short human readable descriptions to biological sequences or gene families using references. For this, prot-scriber consumes sequence similarity search results in tabular format (Blast or Diamond).
bioinformatics protein-function-prediction gene-families biological-sequence-analysis blastp blastx genomics
Language:Rust 5
anazhmetdin / protEncoder
python package to encode protein using different methods for machine learning
bioinformatics protein-encoding machine-learning onehot-encoder protvec protein-function-prediction cafa
Language:Python 3
johnnytam100 / FPredX
This repository contains the FPredX models for the prediction of excitation maximum, emission maximum, brightness and oligomeric state of fluorescent proteins.
bioinformatics machine-learning protein-design protein-function-prediction protein-sequence
Language:Python 3
Sametle06 / ProFAB
A platfrom supplies various machine learning algorithms and datasets and evaluation metrics for Protein Function Prediction
machine-learning classification datasets protein-function-prediction
Language:Python 3
Vikasdubey0551 / Sequential-analysis-ANN
Classification of protein function based on their sequences with Artificial Neural Networks
artificial-neural-networks machine-learning protein-databases protein-function-prediction
Language:Jupyter Notebook 3
darcyabjones / pclust
A nextflow pipeline to cluster sets of proteins.
protein-clustering protein-function-prediction effector protein bioinformatics bioinformatics-pipeline pipeline
Language:R 2
dollabillgates / alphafold_transform
Functions for converting Alphafold PDB molecules into graph representations for use with graph networks.
alphafold alphafold2 networkx protein-function-prediction pytorch-geometric bioinformatics cafa gene-ontology kaggle pdb dssp
Language:Python 2
AIMedLab / BioNEV
Graph Embedding Evaluation / Code and Datasets for "Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations"
drug-disease-associations drug-drug-interaction graph-embedding link-prediction node-classification protein-function-prediction protein-protein-interaction semantic-type-detection
Language:Python 1
BorgwardtLab / DeepEST
expression-location multimodal-deep-learning protein-function-prediction protein-structure
Language:Python 1
GauravPandeyLab / ensemble_integration
Integrating multimodal data through heterogeneous ensembles
multimodal dataintegration model-interpretation protein-function-prediction
Language:Python 1
nnilayy / CAFA-5-Protein-Function-Prediction
kaggle-competition large-language-models multilabel-classification protein-function-prediction transformers
Language:Jupyter Notebook 1
RG-10 / RG-10.github.io
🌱🌟 My Personal Portfolio 🌟🌱
css data-science deep-learning deployment html jupyter-notebook machine-learning portfolio protein-function-prediction protein-sequence python
Language:JavaScript 1
SoliareofAstora / portfolio-Metagenomic-DeepFRI
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN. This repository is for portfolio purposes only. For currently maintained version go to Małopolskie Centrum Biotechnologii repository - https://github.com/bioinf-mcb/Metagenomic-DeepFRI
genomics mmseqs protein-structure protein-sequences protein-function-prediction
Language:Python 1
anazhmetdin / GOlite
python package to train CNN and DenseNet for protein function prediction
bioinformatics cafa cnn deep-learning densenet protein-function-prediction
Language:Python 0
ProteinEngineering-PESB2 / hfbs-class-models
Developing assembled functional classifications models via optimized machine learning algorithms
machine-learning protein-encoding protein-engineering protein-function-prediction
Language:Python 0
suyash-chintawar / OntoPred
An efficient attention-based approach for Protein Function Prediction using skip-gram features. Proposing two novel approaches, namely, OntoPred and OntoPredPlus capable to annotate protein sequences accurately.
attention-mechanism bioinformatics gene-ontology lstm protein-function-prediction
Language:Jupyter Notebook 0
ccdmb / pclust
A nextflow pipeline to cluster sets of proteins.
protein-clustering protein-function-prediction effector protein bioinformatics bioinformatics-pipeline pipeline
Language:Groovy
cepdnaclk / e16-4yp-Automated-Protein-Function-Prediction
Automated protein function prediction is critical for the annotation of uncharacterized protein sequences, where accurate prediction methods are still required.we expect to create an accurate prediction model that assigns the best sub-graph of the gene ontology to each new protein and output a prediction score for this sub-graph and/or each predicted term .
cafa machine-learning afp bioinformatics gene-ontology protein-function-prediction
RG-10 / Protein-Functions-Prediction
🧬Protein Functions Prediction through Amino Acids Sequences🧬
data data-science dataviz deep-learning exploratory-data-analysis machine-learning matplotlib model-predictions numpy pandas protein protein-analysis protein-function-prediction rnn-lstm seaborn
Language:Jupyter Notebook

protein-function-prediction

kexinhuang12345 / DeepPurpose

zjunlp / OntoProtein

samsinai / VAE_protein_function

J-SNACKKB / FLIP

PedroMTQ / mantis

XinshaoAmosWang / DeepCriticalLearning

yourh / DeepGraphGO

bioinf-mcb / Metagenomic-DeepFRI

psipred / FFPredGAN

idrblab / AnnoPRO

microsoft / protein-uq

amirmohan / epistatic-net

idrblab / PFmulDL

kiharalab / Domain-PFP

psipred / STRING2GO

primaryodors / primarydock

usadellab / prot-scriber

anazhmetdin / protEncoder

johnnytam100 / FPredX

Sametle06 / ProFAB

Vikasdubey0551 / Sequential-analysis-ANN

darcyabjones / pclust

dollabillgates / alphafold_transform

AIMedLab / BioNEV

BorgwardtLab / DeepEST

GauravPandeyLab / ensemble_integration

nnilayy / CAFA-5-Protein-Function-Prediction

RG-10 / RG-10.github.io

SoliareofAstora / portfolio-Metagenomic-DeepFRI

anazhmetdin / GOlite

ProteinEngineering-PESB2 / hfbs-class-models

suyash-chintawar / OntoPred

ccdmb / pclust

cepdnaclk / e16-4yp-Automated-Protein-Function-Prediction

RG-10 / Protein-Functions-Prediction