nf-core/phyloplace
nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.
evolutionevolutionary-treephylogenetic-placementphylogeneticssequence-classificationtaxonomy-assignment
Version history
v2.0.1 - [2026-06-16]
Added
Fixed
- [#53](https://github.com/nf-core/phyloplace/pull/53) - Improve documentation of columns in input sheets [addresses #41](https://github.com/nf-core/phyloplace/issues/41) (by @erikrikarddaniel)
- [#53](https://github.com/nf-core/phyloplace/pull/53) - Fix broken documentation links for parameters [addresses #49](https://github.com/nf-core/phyloplace/issues/49) (by @erikrikarddaniel)
- [#53](https://github.com/nf-core/phyloplace/pull/53) - Improve adherence to Nextflow code standards [addresses #48](https://github.com/nf-core/phyloplace/issues/48) (by @erikrikarddaniel)
- [#52](https://github.com/nf-core/phyloplace/pull/52) - Template update for nf-core/tools version 4.0.2 (by @erikrikarddaniel)Dependencies
- [#52](https://github.com/nf-core/phyloplace/pull/52) - Update some software versions (by @erikrikarddaniel)| software | previously | now |
|---|---|---|
| nextflow | >=24.04.2 | >=25.10.4 |
| hmmer/easel | 0.48 | 0.49 |
| hmmer | 3.3.2 | 3.4 |
| MultiQC | 1.27 | 1.35 |
This major release of the pipeline introduces a new mode — search and phylogenetic classification — in addition to the previous 1.0.0 version. The two modes are distinguished by the use of separate input sheets with slightly different content, passed to the pipeline using either --phyloplace_input (phylogenetic placement only) or --phylosearch_input (search and phylogenetic classification). See the documentation for details.
Initial release of nf-core/phyloplace, created with the nf-core template.
The pipeline performs phylogenetic placement of nucleotide or amino acid sequences in a reference phylogeny.
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last release
5 days ago
last update
5 days ago