Nextflow Modules
Showing module(s) with keyword "phylogenetics"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/custom/resolvetaxonomy | Process | taxonomy fasta phylogenetics | Resolve the taxonomy for a set of sequences: use an explicit taxonomy file if one is given (warning, not silently ignoring, if the sequences also carry embedded taxonomy text); otherwise derive taxonomy from each sequence's own FASTA header, GTDB-style (`>id taxonomy;string`). Headers are always stripped down to a bare id in the output sequences, regardless of which taxonomy source was used. When taxonomy_required is false, records with neither source are dropped from the resolved taxonomy (with a warning) instead of failing the run. |
| nf-core/fasta_newick_epang_gappa | Workflow | phylogenetic placement phylogenetics alignment fasta newick | Run phylogenetic placement with a number of query sequences plus a reference alignment and phylogeny. Used in nf-core/phyloplace. |
| nf-core/fastme | Process | phylogenetics newick minimum_evolution distance-based | Distance-based phylogeny with FastME |
| nf-core/virusrecom | Process | recombination virus genomics phylogenetics | Information-theory-based method for recombination detection of viral lineages using weighted information content (WIC). |