Pinned Repositories
bio_embeddings
Repository containing bio_embeddings resources
ConSurf
Evolutionary conservation estimation of residues or nucleotides
EAT
Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer annotations from a set of labeled lookup protein embeddings to query protein embedding.
goPredSim
nalaf
NLP framework in python for entity recognition and relationship extraction
predictprotein-docker
Based off of the official Rostlab & PredictProtein website installation, as of 2020-09-07, the produced Docker image from this repository will result in a fully functioning predictprotein suite, including all of its required methods. Databases are not included.
ProtTrans
ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.
SeqVec
Modelling the Language of Life - Deep Learning Protein Sequences
TMbed
Transmembrane proteins predicted through Language Model embeddings
VESPA
VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.
Rostlab's Repositories
Rostlab/nalaf
NLP framework in python for entity recognition and relationship extraction
Rostlab/SeqVec
Modelling the Language of Life - Deep Learning Protein Sequences
Rostlab/goPredSim
Rostlab/bindPredict
Prediction of binding residues for metal ions, nucleic acids, and small molecules.
Rostlab/ConSurf
Evolutionary conservation estimation of residues or nucleotides
Rostlab/VESPA
VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.
Rostlab/EAT
Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer annotations from a set of labeled lookup protein embeddings to query protein embedding.
Rostlab/ProNA2020
ProNA2020: System predicting protein-DNA, protein-RNA and protein-protein binding sites from sequence
Rostlab/predictprotein-docker
Based off of the official Rostlab & PredictProtein website installation, as of 2020-09-07, the produced Docker image from this repository will result in a fully functioning predictprotein suite, including all of its required methods. Databases are not included.
Rostlab/FunFamsClustering
Rostlab/ProtTrans
ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.
Rostlab/nala
Text mining of natural language mutations mentions
Rostlab/LocText
Relation Extraction (RE) of: Proteins <--> Cell Compartments
Rostlab/LambdaPP
Rostlab/TMSEG
Transmembrane Proteins Predictor
Rostlab/LocNuclei
Prediction of subnuclear locations
Rostlab/PredictProtein
PredictProtein is an automatic service for protein database searches and the prediction of aspects of protein structure and function.
Rostlab/LocTree3
Protein Subcelullar Localization Sequenced-Based Predictor
Rostlab/ProNAhot
ProNAhot: Predicting protein-DNA, protein-RNA and protein-protein binding hot-spots from sequence
Rostlab/RostSpace
Rostlab/bindadjust
Rostlab/smiles-cl
Rostlab/TMvis
Combining AlphaFold 2 structures with predicted transmembrane proteins into interactive 3D visualizations of protein structures embedded into membranes.
Rostlab/bio_embeddings
Repository containing bio_embeddings resources
Rostlab/ppi_utils
Rostlab/TMbed
Transmembrane proteins predicted through Language Model embeddings
Rostlab/TMvisDB
TMvisDB provides per-residue transmembrane topology annotations for all proteins in AlphaFold DB (~ 200 million proteins, September '22) predicted as transmembrane proteins (~ 46 million).
Rostlab/blog
Rostlab/mlschool23
Website for the Machine Learning Summerschool for Toxinologists
Rostlab/SETH
Re-directing to the official SETH repository