createCore: createCore
In microbiome/microbiomeold: Tools for microbiome analysis
Description
Usage
Arguments
Value
Author(s)
References
Examples
Description
create coreMatrix
Usage
1
2
createCore(data, verbose = FALSE, prevalence.intervals = seq(20, 100, 20),
intensity.intervals = NULL)
Arguments
data
data matrix; phylotypes vs. samples
verbose
verbose
prevalence.intervals
a vector of prevalence percentages in [0,100]
intensity.intervals
a vector of intensities around the data range
Value
Estimated core microbiota
Author(s)
Contact: Jarkko Salojarvi microbiome-admin@googlegroups.com
References
A Salonen et al. The adult intestinal core microbiota is determined by
analysis depth and health status. Clinical Microbiology and Infection
18(S4):16 20, 2012.
To cite the microbiome R package, see citation('microbiome')
Examples
1
2
data(peerj32)
core <- createCore(t(peerj32$microbes))
microbiome/microbiomeold documentation built on May 22, 2019, 9:57 p.m.
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Description Usage Arguments Value Author(s) References Examples
Description
create coreMatrix
Usage
1 2 | createCore(data, verbose = FALSE, prevalence.intervals = seq(20, 100, 20),
intensity.intervals = NULL)
|
Arguments
data |
data matrix; phylotypes vs. samples |
verbose |
verbose |
prevalence.intervals |
a vector of prevalence percentages in [0,100] |
intensity.intervals |
a vector of intensities around the data range |
Value
Estimated core microbiota
Author(s)
Contact: Jarkko Salojarvi microbiome-admin@googlegroups.com
References
A Salonen et al. The adult intestinal core microbiota is determined by analysis depth and health status. Clinical Microbiology and Infection 18(S4):16 20, 2012.
To cite the microbiome R package, see citation('microbiome')
Examples
1 2 | data(peerj32)
core <- createCore(t(peerj32$microbes))
|
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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