make_ranked_sums: Rank ASV abundance sums for a given phyloseq object
In simeross/CuPhyR: Custom Functions for Microbiome Analysis with Phyloseq
Description
Usage
Arguments
Value
Author(s)
Examples
View source: R/make_ranked_sums.R
Description
A function that ranks all samples in a phyloseq object by the sum of reads assigned to all ASVs in that sample (Abundance sum/Total ASV counts).
Usage
1
make_ranked_sums(physeq = ps, myset = "Not specified")
Arguments
physeq
a phyloseq object to rank by abundance
myset
optional: a character string describing the ranked physeq object.
Value
a tibble that contains all sample metadata (fcts), their abundance (dbl),
their ranks (int) by sum of abundance, their original order (int) and a custom descriptor (chr).
Author(s)
Simeon Rossmann
Examples
1
ranked_controls <- make_ranked_sums(physeq = ps_contrls)
simeross/CuPhyR documentation built on April 1, 2020, 10:28 a.m.
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Description Usage Arguments Value Author(s) Examples
View source: R/make_ranked_sums.R
Description
A function that ranks all samples in a phyloseq object by the sum of reads assigned to all ASVs in that sample (Abundance sum/Total ASV counts).
Usage
1 | make_ranked_sums(physeq = ps, myset = "Not specified")
|
Arguments
physeq |
a phyloseq object to rank by abundance |
myset |
optional: a character string describing the ranked physeq object. |
Value
a tibble that contains all sample metadata (fcts), their abundance (dbl), their ranks (int) by sum of abundance, their original order (int) and a custom descriptor (chr).
Author(s)
Simeon Rossmann
Examples
1 | ranked_controls <- make_ranked_sums(physeq = ps_contrls)
|
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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