protein-function-prediction

There are 11 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 926
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 135
samsinai / VAE_protein_function
Protein function prediction using a variational autoencoder
machine-learning keras generative-model variational-autoencoder protein-function-prediction vae python
Language:Jupyter Notebook 87
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 84
PedroMTQ / mantis
A package to annotate protein sequences
protein-annotation bioinformatics hmmer mantis protein-function-prediction
Language:Python 52
XinshaoAmosWang / DeepCriticalLearning
Deep Critical Learning. Implementation of ProSelfLC, IMAE, DM, etc.
bert-transformer convolutional-neural-networks deep-learning image-classification protein-classification protein-design protein-function-prediction protein-localization protein-transformer pytorch
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 protein-structure mmseqs protein-sequences protein-function-prediction
Language:Python 29
idrblab / AnnoPRO
Feature map and function annotation of Proteins
blastp deep-learning feature-map protein-function-prediction
Language:Python 21
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
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
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++ 6
psipred / STRING2GO
Protein function prediction based on protein-protein interaction network topology and deep maxout neural networks
deep-neural-networks network-embedding representation-learning protein-function-prediction
Language:Python 6
branchialspace / foldbender
molecular graph representation
alphafold alphafold2 networkx protein-function-prediction pytorch-geometric bioinformatics cafa gene-ontology kaggle pdb dssp
Language:Python 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
aalto-ics-kepaco / GO-LTR-prediction
Protein function prediction through latent tensor reconstruction
gene-ontology multi-view-learning protein-function-prediction latent-tensor-reconstruction
Language:Python 4
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
BorgwardtLab / DeepEST
expression-location multimodal-deep-learning protein-function-prediction protein-structure
Language:Python 2
darcyabjones / pclust
A nextflow pipeline to cluster sets of proteins.
protein-clustering protein-function-prediction effector protein bioinformatics bioinformatics-pipeline pipeline
Language:R 2
GauravPandeyLab / ensemble_integration
Integrating multimodal data through heterogeneous ensembles
multimodal dataintegration model-interpretation protein-function-prediction
Language:Python 2
nnilayy / CAFA-5-Protein-Function-Prediction
kaggle-competition large-language-models multilabel-classification protein-function-prediction transformers
Language:Jupyter Notebook 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
bio-ontology-research-group / PU-GO
Predicting protein functions using positive-unlabeled ranking with ontology-based priors
positive-unlabeled-learning protein-function-prediction
Language:Python 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
deep-learning cnn densenet protein-function-prediction cafa bioinformatics
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 gene-ontology lstm protein-function-prediction bioinformatics
Language:Jupyter Notebook 0
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

idrblab / AnnoPRO

psipred / FFPredGAN

microsoft / protein-uq

amirmohan / epistatic-net

idrblab / PFmulDL

kiharalab / Domain-PFP

primaryodors / primarydock

psipred / STRING2GO

branchialspace / foldbender

usadellab / prot-scriber

aalto-ics-kepaco / GO-LTR-prediction

anazhmetdin / protEncoder

johnnytam100 / FPredX

Sametle06 / ProFAB

Vikasdubey0551 / Sequential-analysis-ANN

BorgwardtLab / DeepEST

darcyabjones / pclust

GauravPandeyLab / ensemble_integration

nnilayy / CAFA-5-Protein-Function-Prediction

AIMedLab / BioNEV

bio-ontology-research-group / PU-GO

RG-10 / RG-10.github.io

SoliareofAstora / portfolio-Metagenomic-DeepFRI

anazhmetdin / GOlite

ProteinEngineering-PESB2 / hfbs-class-models

suyash-chintawar / OntoPred

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

RG-10 / Protein-Functions-Prediction