convertOtuTad: Converts an OTU count data frame to a TAD data frame
In ebimetagenomics: EBI Metagenomics Portal
Description
Usage
Arguments
Value
See Also
Examples
Description
This function takes as input a data frame representing OTU counts, such as returned by getRunOtu, and tabulates it in the form of a taxa abundance distribution (TAD).
Usage
1
convertOtuTad(otu)
Arguments
otu
An OTU data frame.
Value
An R data frame representing a taxa abundance distribution (TAD). The first column is species abundance and the second column represents the number of species with that level of abundance in the sample.
See Also
getSampleOtu, getRunOtu, mergeOtu
Examples
1
2
3
4
5
6
ps=getProjectSummary("SRP047083")
samp=projectSamples(ps)
runs=runsBySample(ps,samp[2])
otu=getRunOtu(runs[1])
tad=convertOtuTad(otu)
head(tad)
ebimetagenomics documentation built on May 2, 2019, 9:29 a.m.
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Description Usage Arguments Value See Also Examples
Description
This function takes as input a data frame representing OTU counts, such as returned by getRunOtu, and tabulates it in the form of a taxa abundance distribution (TAD).
Usage
1 | convertOtuTad(otu)
|
Arguments
otu |
An OTU data frame. |
Value
An R data frame representing a taxa abundance distribution (TAD). The first column is species abundance and the second column represents the number of species with that level of abundance in the sample.
See Also
getSampleOtu, getRunOtu, mergeOtu
Examples
1 2 3 4 5 6 | ps=getProjectSummary("SRP047083")
samp=projectSamples(ps)
runs=runsBySample(ps,samp[2])
otu=getRunOtu(runs[1])
tad=convertOtuTad(otu)
head(tad)
|
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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