PerformDEAnalyse: Perform differential analysis
In xia-lab/MicrobiomeAnalystR: MicrobiomeAnalystR - A comprehensive R package for statistical, visual, and functional analysis of the microbiome.
PerformDEAnalyse R Documentation
Perform differential analysis
Description
This functions performs alpha diversity.
Usage
PerformDEAnalyse(
mbSetObj,
taxalvl = "Genus",
netType = "gem",
overlay,
initDE = 1,
analysisVar = "CLASS",
adjustedVar,
alg = "limma",
plvl = 0.05,
fc.lvl = 1,
selected = "NA",
nonpar = FALSE
)
Arguments
mbSetObj
Input the name of the mbSetObj.
taxalvl
Character, input taxonomy level
metadata
Character, input the name of the experimental factor
to group the samples.
Author(s)
Jeff Xia jeff.xia@mcgill.ca
McGill University, Canada
License: GNU GPL (>= 2)
xia-lab/MicrobiomeAnalystR documentation built on April 17, 2024, 7:45 p.m.
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| PerformDEAnalyse | R Documentation |
Perform differential analysis
Description
This functions performs alpha diversity.
Usage
PerformDEAnalyse(
mbSetObj,
taxalvl = "Genus",
netType = "gem",
overlay,
initDE = 1,
analysisVar = "CLASS",
adjustedVar,
alg = "limma",
plvl = 0.05,
fc.lvl = 1,
selected = "NA",
nonpar = FALSE
)
Arguments
mbSetObj |
Input the name of the mbSetObj. |
taxalvl |
Character, input taxonomy level |
metadata |
Character, input the name of the experimental factor to group the samples. |
Author(s)
Jeff Xia jeff.xia@mcgill.ca McGill University, Canada License: GNU GPL (>= 2)
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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