bootstrap.microbecount: bootstrap.microbecount
In microbiome/microbiomeold: Tools for microbiome analysis
Description
Usage
Arguments
Value
Author(s)
References
Examples
Description
Auxiliary function for bootstrap.microbes
Usage
1
2
bootstrap.microbecount(D, Nsample = NULL, minprev = 1, Nboot = 1000,
I.thr = 1.8, ncore = 1, I.max = NULL)
Arguments
D
data
Nsample
sample size
minprev
minimum prevalence
Nboot
bootstrap sample size
I.thr
intensity threshold
ncore
number of nodes for parallelization
I.max
max intensity threshold
Value
median microbe count in bootstrapped cores
Author(s)
Contact: Jarkko Salojarvi microbiome-admin@googlegroups.com
References
The core microbiota bootstrap method implemented with this function:
Salonen A, Salojarvi J, Lahti L, de Vos WM. The adult intestinal
core microbiota is determined by analysis depth and health
status. Clinical Microbiology and Infection 18(S4):16-20, 2012
To cite this R package, see citation("microbiome")
Examples
1
2
data(peerj32)
tmp <- bootstrap.microbecount(t(peerj32$microbes), Nboot = 5)
microbiome/microbiomeold documentation built on May 22, 2019, 9:57 p.m.
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Description Usage Arguments Value Author(s) References Examples
Description
Auxiliary function for bootstrap.microbes
Usage
1 2 | bootstrap.microbecount(D, Nsample = NULL, minprev = 1, Nboot = 1000,
I.thr = 1.8, ncore = 1, I.max = NULL)
|
Arguments
D |
data |
Nsample |
sample size |
minprev |
minimum prevalence |
Nboot |
bootstrap sample size |
I.thr |
intensity threshold |
ncore |
number of nodes for parallelization |
I.max |
max intensity threshold |
Value
median microbe count in bootstrapped cores
Author(s)
Contact: Jarkko Salojarvi microbiome-admin@googlegroups.com
References
The core microbiota bootstrap method implemented with this function: Salonen A, Salojarvi J, Lahti L, de Vos WM. The adult intestinal core microbiota is determined by analysis depth and health status. Clinical Microbiology and Infection 18(S4):16-20, 2012
To cite this R package, see citation("microbiome")
Examples
1 2 | data(peerj32)
tmp <- bootstrap.microbecount(t(peerj32$microbes), Nboot = 5)
|
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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