summarize_taxonomy: Summarize taxonomy
In mworkentine/mattsUtils: Personal Utility Functions For Various Analysis
Description
Usage
Arguments
Value
View source: R/microbiome_helpers.R
Description
Summarize a specified taxonomy within a higher level, usually phylum
Usage
1
2
summarize_taxonomy(physeq, grouping_tax = "Phylum",
summary_tax = "Genus", filter = 0.01)
Arguments
physeq
a valid phyloseq object
grouping_tax
the higher level taxonomy to group within
summary_tax
the lower level taxonomy to summarize
filter
numeric, filter out members of the summary taxonomy below this fraction
Value
a data frame
mworkentine/mattsUtils documentation built on May 23, 2019, 11:58 a.m.
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.
Description Usage Arguments Value
View source: R/microbiome_helpers.R
Description
Summarize a specified taxonomy within a higher level, usually phylum
Usage
1 2 | summarize_taxonomy(physeq, grouping_tax = "Phylum",
summary_tax = "Genus", filter = 0.01)
|
Arguments
physeq |
a valid phyloseq object |
grouping_tax |
the higher level taxonomy to group within |
summary_tax |
the lower level taxonomy to summarize |
filter |
numeric, filter out members of the summary taxonomy below this fraction |
Value
a data frame
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.