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Add TM-Vec and DeepBLAST from "Protein remote homology detection and structural alignment using deep learning"

enhancementNew feature or requestNew feature or request

Status: Open.

#38 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add mTM-Align

enhancementNew feature or requestNew feature or request

nf-core moduleExisting nf-core moduleExisting nf-core module

Status: Open.

#37 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add S2F (Sequence to Function) from "Protein function prediction for newly sequenced organisms"

enhancementNew feature or requestNew feature or request

Status: Open.

#36 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add REBEAN (Read Embedding Based Enzyme Annotator) from "Deciphering enzymatic potential in metagenomic reads through DNA language model"

enhancementNew feature or requestNew feature or request

Status: Open.

#35 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add ProtTucker from "Contrastive learning on protein embeddings enlightens midnight zone"

enhancementNew feature or requestNew feature or request

Status: Open.

#33 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add PLMsearch from "PLMSearch: Protein language model powers accurate and fast sequence search for remote homology"

enhancementNew feature or requestNew feature or request

Status: Open.

#32 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add MMseqs

enhancementNew feature or requestNew feature or request

nf-core moduleExisting nf-core moduleExisting nf-core module

Status: Open.

#31 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add dense homolog retriever (DHR) from "Fast, sensitive detection of protein homologs using deep dense retrieval"

enhancementNew feature or requestNew feature or request

Status: Open.

#29 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add CLEAN (contrastive learning-enabled enzyme annotation) from "Functional protein mining with conformal guarantees"

enhancementNew feature or requestNew feature or request

Status: Open.

#28 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add BLAST/BLASTP

enhancementNew feature or requestNew feature or request

nf-core moduleExisting nf-core moduleExisting nf-core module

Status: Open.

#27 In nf-core/proteinannotator;

· olgabot opened on May 13, 2025

Add FANTASIA (recommended by Earth Biogenome Project)

enhancementNew feature or requestNew feature or request

Status: Open.

Enhancement

#25 In nf-core/proteinannotator;

· olgabot opened on Apr 23, 2025

Add EnTAP (recommended by Earth Biogenome Project)

enhancementNew feature or requestNew feature or request

Status: Open.

#24 In nf-core/proteinannotator;

· olgabot opened on Apr 23, 2025