core_methods: Combine Methods
In MayaGans/CoreMicro: Testing Widely Used Core Microbiome Assignment Methods
core_methods R Documentation
Combine Methods
Description
A wrapper for
summarise_taxa
prop_reads,
occupancy_core,
abundance_and_occupancy_core and
hard_cutoff methods
Usage
core_methods(otu_table, taxa_as_rows = TRUE)
Arguments
otu_table
a dataframe of OTUs where
the first row is the OTU ID and column names refer to sites
taxa_as_rows
logical data must be in a format where the taxa are rows
and the sites are columns. The default value is TRUE,
if FALSE data will be transposed for downstream analysis.
Value
a dataframe with all observed taxa,
their inclusion to the core by method (delineated as a 1 or 0),
the mean, variance, and coefficient of variation.
Examples
## Not run: core_methods(arabidopsis)
MayaGans/CoreMicro documentation built on March 5, 2023, 2:54 a.m.
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| core_methods | R Documentation |
Combine Methods
Description
A wrapper for
summarise_taxa
prop_reads,
occupancy_core,
abundance_and_occupancy_core and
hard_cutoff methods
Usage
core_methods(otu_table, taxa_as_rows = TRUE)
Arguments
otu_table |
a dataframe of OTUs where the first row is the OTU ID and column names refer to sites |
taxa_as_rows |
|
Value
a dataframe with all observed taxa, their inclusion to the core by method (delineated as a 1 or 0), the mean, variance, and coefficient of variation.
Examples
## Not run: core_methods(arabidopsis)
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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