summarize_taxa: summarize_taxa
In zhuchcn/phylox: Analyzing and Visualization Microbiome Data on Different Phylogenic Levels
Description
Usage
Arguments
Author(s)
Examples
Description
summarize phyloseq object on different taxonomy level.
Usage
1
summarize_taxa(physeq, level = "Family", keep_full_tax = TRUE)
Arguments
physeq
a phyloseq object
level
the taxonomy level to summarize. Level must be one from 1 to 7, while 1 is Kingdom and 7 is Species.
keep_full_tax
logistical value whether to use the full tax path. Default is FALSE.
Author(s)
Chenghao Zhu
Examples
1
2
3
library(phyloseq)
data("GlobalPatterns")
GP_family = summarize_taxa(GlobalPatterns, level=5)
zhuchcn/phylox documentation built on May 31, 2019, 5:14 p.m.
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Description Usage Arguments Author(s) Examples
Description
summarize phyloseq object on different taxonomy level.
Usage
1 | summarize_taxa(physeq, level = "Family", keep_full_tax = TRUE)
|
Arguments
physeq |
a phyloseq object |
level |
the taxonomy level to summarize. Level must be one from 1 to 7, while 1 is Kingdom and 7 is Species. |
keep_full_tax |
logistical value whether to use the full tax path. Default is FALSE. |
Author(s)
Chenghao Zhu
Examples
1 2 3 | library(phyloseq)
data("GlobalPatterns")
GP_family = summarize_taxa(GlobalPatterns, level=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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