metataxa2subcounts: create a new (sub) count table out of a subcomponent of the...
In armbrustlab/manta: Microbial Assemblage Normalized Transcript Analysis

Description Usage Arguments Value See Also Examples

A simple and easy way to pull a subcomponent transcriptome out of the metatranscriptome. This one line function is useful for those wanting to just see the count data for one species or to create a new DGE or manta object on a subset of data.

1	metataxa2subcounts(x, meta.lev='species', taxa.filter)

`x`	a manta object.
`meta.lev`	the name of the taxinomic rank on which to subset.
`taxa.filter`	the name of the taxonomy at the meta.lev rank on which to subset.

a count table

manta

1 2	load(system.file('extdata','PapaGO-BLAST.results-diatoms.Rdata',package='manta')) metataxa2subcounts(x, meta.lev='species', taxa.filter='Pseudo-nitzschia granii')