Description

assigns taxonomy to query sequences in phylogenetic placement output

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’ ]

jplace (file)

jplace file output from phylogenetic placement, e.g. EPA-NG, gzipped or not

*.{jplace,jplace.gz}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’ ]

examineassign (directory)

Execution directory

profile (file)

profile tsv file

*profile.tsv

labelled_tree (file)

labelled tree in newick format

*labelled_tree.newick

per_query (file)

per query taxonomy assignments in tsv format

*per_query.tsv

versions (file)

File containing software versions

versions.yml
included in
ampliseq phyloplace
author
Github user erikrikarddaniel
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Tools

gappa
GPL v3

Genesis Applications for Phylogenetic Placement Analysis

github.com/lczech/gappa github.com/lczech/gappa/wiki https://github.com/lczech/gappa 10.1093/bioinformatics/btaa070