rename_OTU: Rename each taxon
In malucalle/selbal: Finding highly - associated balances with the response variable.
rename_OTU R Documentation
Rename each taxon
Description
rename_OTU assigns a non - repeated name to each bacteria for a given
taxonomic level.
Usage
rename_OTU(phy, rank, db = "SILVA")
Arguments
phy
the phyloseq object where the information is contained.
rank
a numeric value indicating the taxonomic level where the
names should be taken. It corresponds with the column number of
phy@tax_table associated to the desired taxonomic rank.
db
the bacterial database used to name each OTU of the phyloseq
object: SILVA (default) or GreenGenes.
Value
A vector with the names for each bacteria. It has not repeated names
and none of them starts with Incertae_Sedis or unclassified.
malucalle/selbal documentation built on May 31, 2024, 2:36 p.m.
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| rename_OTU | R Documentation |
Rename each taxon
Description
rename_OTU assigns a non - repeated name to each bacteria for a given
taxonomic level.
Usage
rename_OTU(phy, rank, db = "SILVA")
Arguments
phy |
the phyloseq object where the information is contained. |
rank |
a |
db |
the bacterial database used to name each OTU of the phyloseq object: SILVA (default) or GreenGenes. |
Value
A vector with the names for each bacteria. It has not repeated names and none of them starts with Incertae_Sedis or unclassified.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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