fillTax2

this function is similar to fillTax, except that this function has no parameter of "fillAll"

summarize

Summarizes the taxonomic composition, diversity contribution of the rare and abundant community by using OTU (operational taxonomic unit) table which was generated by analyzing pipeline of 'QIIME' or 'mothur'. The rare biosphere in this package is subset by the relative abundance threshold (for details about rare biosphere please see Lynch and Neufeld (2015) <doi:10.1038/nrmicro3400>).

Sizhong Yang

otuSummary

Summarizing OTU Table Regarding the Composition, Abundance and
Beta Diversity of Abundant and Rare Biospheres

fillTax2 function

<dl> <dt>x</dt>
<dd>Character, structured strings giving the heirarchical rank of taxonomy. Please convert to character object for your input taxonomic information before using.</dd> <dt>split</dt>
<dd>Character, the seperator for the heirarchical taxonomy.</dd> <dt>prefix</dt>
<dd>Logical, whether contains prefix in the taxonomic strings, default TRUE.</dd></dl>

Arguments

reshape the heirarchical taxonomy — fillTax2

<dl>

 <dt>x</dt>
<dd>Character, structured strings giving the heirarchical rank of taxonomy. Please convert to character object for your input taxonomic information before using.</dd>

 <dt>split</dt>
<dd>Character, the seperator for the heirarchical taxonomy.</dd>

 <dt>prefix</dt>
<dd>Logical, whether contains prefix in the taxonomic strings, default TRUE.</dd>

</dl>

fillTax2: reshape the heirarchical taxonomy

Description

Usage

Arguments

See Also

Examples