Nextflow Modules
Showing module(s) with keyword "contigs"
| Module | Keywords | Description |
|---|---|---|
| nf-core/concoct/concoct | contigs fragment mags binning concoct kmer nucleotide composition metagenomics bins | Unsupervised binning of metagenomic contigs by using nucleotide composition - kmer frequencies - and coverage data for multiple samples |
| nf-core/concoct/concoctcoveragetable | contigs fragment mags binning bed bam subcontigs coverage | Generate the input coverage table for CONCOCT using a BEDFile |
| nf-core/concoct/cutupfasta | contigs fragment mags binning fasta cut cut up | Cut up fasta file in non-overlapping or overlapping parts of equal length. |
| nf-core/concoct/extractfastabins | contigs fragment mags binning fasta cut cut up bins merge | Creates a FASTA file for each new cluster assigned by CONCOCT |
| nf-core/concoct/mergecutupclustering | contigs fragment mags binning fasta cut cut up merge | Merge consecutive parts of the original contigs original cut up by cut_up_fasta.py |
| nf-core/dastool/dastool | binning das tool table de novo bins contigs assembly das_tool | DAS Tool binning step. |
| nf-core/dastool/fastatocontig2bin | binning das tool table de novo bins contigs assembly das_tool | Helper script to convert a set of bins in fasta format to tabular scaffolds2bin format |
| nf-core/dastool/scaffolds2bin | binning das tool table de novo bins contigs assembly das_tool | Helper script to convert a set of bins in fasta format to tabular scaffolds2bin format |
| 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/fargene | antibiotic resistance genes ARGs identifier metagenomic contigs | tool that takes either fragmented metagenomic data or longer sequences as input and predicts and delivers full-length antiobiotic resistance genes as output. |
| nf-core/gecco/run | bgc detection metagenomics contigs | GECCO is a fast and scalable method for identifying putative novel Biosynthetic Gene Clusters (BGCs) in genomic and metagenomic data using Conditional Random Fields (CRFs). |
| nf-core/maxbin2 | metagenomics assembly binning maxbin2 de novo assembly mags metagenome-assembled genomes contigs | MaxBin is a software that is capable of clustering metagenomic contigs |
| nf-core/tiara/tiara | contigs metagenomics classify | Domain-level classification of contigs to bacterial, archaeal, eukaryotic, or organelle |