taxa_count: Counts the reads for a specific taxonomy level.
In Gibbons-Lab/mbtools: Provides helper functions for microbiome preprocessing and analysis
taxa_count R Documentation
Counts the reads for a specific taxonomy level.
Description
Counts the reads for a specific taxonomy level.
Usage
taxa_count(ps, lev = "Genus", zeros = FALSE)
Arguments
ps
A phyloseq object.
lev
The taxonomy level at which to count. If NA uses the finest level
available (individual sequences).
zeros
Whether to explicitly track zero counts.
Value
A mbquant data table containing the counts in "long" format.
Examples
NULL
Gibbons-Lab/mbtools documentation built on Jan. 28, 2024, 11:08 a.m.
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| taxa_count | R Documentation |
Counts the reads for a specific taxonomy level.
Description
Counts the reads for a specific taxonomy level.
Usage
taxa_count(ps, lev = "Genus", zeros = FALSE)
Arguments
ps |
A phyloseq object. |
lev |
The taxonomy level at which to count. If NA uses the finest level available (individual sequences). |
zeros |
Whether to explicitly track zero counts. |
Value
A mbquant data table containing the counts in "long" format.
Examples
NULL
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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