core_heatmap: core_heatmap
In microbiome/microbiomeold: Tools for microbiome analysis
Description
Usage
Arguments
Value
Author(s)
References
Examples
Description
Heatmap of core microbiota
Usage
1
2
Arguments
data
data matrix: phylotypes vs. samples
detection.thresholds
Vector of detection thresholds
plot
plot the figure
palette
'bw' (grayscale) or 'spectral' (colourscale)
Value
List with the following elements:
plot: ggplot figure
data: prevalence data with the varying thresholds
Author(s)
Contact: Leo Lahti 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 <- core_heatmap(t(peerj32$microbes))
microbiome/microbiomeold documentation built on May 22, 2019, 9:57 p.m.
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Description Usage Arguments Value Author(s) References Examples
Description
Heatmap of core microbiota
Usage
1 2 |
Arguments
data |
data matrix: phylotypes vs. samples |
detection.thresholds |
Vector of detection thresholds |
plot |
plot the figure |
palette |
'bw' (grayscale) or 'spectral' (colourscale) |
Value
List with the following elements: plot: ggplot figure data: prevalence data with the varying thresholds
Author(s)
Contact: Leo Lahti microbiome-admin@googlegroups.com
References
A Salonen et al. The adult intestinal core microbiota is determined by analysis depth and health status. Clinical Microbiology and Infection 18(S4):16 20, 2012. To cite the microbiome R package, see citation('microbiome')
Examples
1 2 | data(peerj32)
core <- core_heatmap(t(peerj32$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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