Nextflow Modules
Showing module(s) with keyword "deep learning"
| Module | Keywords | Description |
|---|---|---|
| nf-core/caalm/caalm | cazyme annotation protein language model deep learning classification | Annotates carbohydrate-active enzyme (CAZyme) families from protein sequences using protein language model (ESM) embeddings and FAISS-based nearest-neighbour search. Performs three-level hierarchical classification: binary CAZyme detection (Level 0), CAZy class assignment (Level 1), and CAZy family assignment (Level 2). |
| nf-core/caalm/downloadmodels | cazyme model download huggingface deep learning | Downloads the CAALM model weights from HuggingFace Hub (lczong/CAALM) into a local models/ directory. The downloaded directory is used as input to the CAALM_CAALM annotation module for CAZyme prediction. |
| nf-core/deeparg/downloaddata | download database deeparg antimicrobial resistance genes deep learning prediction | A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes |
| nf-core/deeparg/predict | deeparg antimicrobial resistance antimicrobial resistance genes arg deep learning prediction contigs metagenomes | A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes |
| nf-core/deepbgc/download | database download BGC biosynthetic gene cluster deep learning neural network random forest genomes bacteria fungi | Database download module for DeepBGC which detects BGCs in bacterial and fungal genomes using deep learning. |
| nf-core/deepbgc/pipeline | BGC biosynthetic gene cluster deep learning neural network random forest genomes bacteria fungi | DeepBGC detects BGCs in bacterial and fungal genomes using deep learning. |
| nf-core/diann/insilicolibrarygeneration | diann spectral library proteomics deep learning dia | Generate in silico predicted spectral library using DIA-NN deep learning predictor. This module uses DIA-NN software for data-independent acquisition (DIA) proteomics data processing. Output materials should include attribution: "Generated using DIA-NN". |
| nf-core/ribodetector | RNA RNAseq rRNA ribosomal RNA rRNA depletion rRNA removal rRNA filtering deep learning Riboseq genomics | Accurate and rapid RiboRNA sequences Detector based on deep learning |