phylogeny¶
| Description |
This QIIME 2 plugin supports generating and manipulating phylogenetic trees. |
|---|---|
| Version | 2024.10.0 |
| Website | https://github.com/qiime2/q2-phylogeny |
| Support |
Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org |
| q2cli Invocation | qiime phylogeny
|
| Artifact API Import | from qiime2.plugins import phylogeny
|
Pipelines¶
Methods¶
- fasttree: Construct a phylogenetic tree with FastTree.
- filter-table: Remove features from table if they’re not present in tree.
- filter-tree: Remove features from tree based on metadata
- iqtree: Construct a phylogenetic tree with IQ-TREE.
- iqtree-ultrafast-bootstrap: Construct a phylogenetic tree with IQ-TREE with bootstrap supports.
- midpoint-root: Midpoint root an unrooted phylogenetic tree.
- raxml: Construct a phylogenetic tree with RAxML.
- raxml-rapid-bootstrap: Construct a phylogenetic tree with bootstrap supports using RAxML.
- robinson-foulds: Calculate Robinson-Foulds distance between phylogenetic trees.