pime.prevalence: Prevalences intervals
In microEcology/pime: Prevalence Interval for Microbiome Evaluation
Description
Usage
Arguments
Value
Examples
View source: R/pime.prevalence.R
Description
This function takes the output of pime.split.by.variable. It estimates the highest prevalence
possible (no empty OTU/ASV table), calculates prevalence for taxa, starting at 5
maximum prevalence possible (no empty OTU table or dropping samples).
After prevalence calculation, each prevalence interval are merged.
Usage
1
pime.prevalence(phylist)
Arguments
phylist
Input, takes a list of phyloseq objects (one for each variable),
output from pime.split.by.variable
Value
A list with a phyloseq object (OTU/ASV and metadata table) per prevalence interval.
Examples
1
2
phylist=pime.split.by.variable(restroom, "Environment")
prev=pime.prevalence(phylist)
microEcology/pime documentation built on Nov. 13, 2019, 11:16 p.m.
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Description Usage Arguments Value Examples
View source: R/pime.prevalence.R
Description
This function takes the output of pime.split.by.variable. It estimates the highest prevalence
possible (no empty OTU/ASV table), calculates prevalence for taxa, starting at 5
maximum prevalence possible (no empty OTU table or dropping samples).
After prevalence calculation, each prevalence interval are merged.
Usage
1 | pime.prevalence(phylist)
|
Arguments
phylist |
Input, takes a list of phyloseq objects (one for each variable),
output from |
Value
A list with a phyloseq object (OTU/ASV and metadata table) per prevalence interval.
Examples
1 2 | phylist=pime.split.by.variable(restroom, "Environment")
prev=pime.prevalence(phylist)
|
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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