core_heatmap: Core Heatmap
In microbiome/microbiome: Microbiome Analytics
core_heatmap R Documentation
Core Heatmap
Description
Core heatmap.
Usage
core_heatmap(x, dets, cols, min.prev, taxa.order)
Arguments
x
OTU matrix
dets
A vector or a scalar indicating the number of intervals
in (0, log10(max(data))). The dets are calculated for relative
abundancies.
cols
colours for the heatmap
min.prev
If minimum prevalence is set, then filter out those
rows (taxa) and columns (dets) that never exceed this prevalence.
This helps to zoom in on the actual core region of the heatmap.
taxa.order
Ordering of the taxa.
Value
Used for its side effects
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')
microbiome/microbiome documentation built on Aug. 22, 2023, 7:12 a.m.
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| core_heatmap | R Documentation |
Core Heatmap
Description
Core heatmap.
Usage
core_heatmap(x, dets, cols, min.prev, taxa.order)
Arguments
x |
OTU matrix |
dets |
A vector or a scalar indicating the number of intervals in (0, log10(max(data))). The dets are calculated for relative abundancies. |
cols |
colours for the heatmap |
min.prev |
If minimum prevalence is set, then filter out those rows (taxa) and columns (dets) that never exceed this prevalence. This helps to zoom in on the actual core region of the heatmap. |
taxa.order |
Ordering of the taxa. |
Value
Used for its side effects
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')
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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