prefilter

Provides functions to enhance the available
statistical analysis procedures in R by providing simple functions to
analysis and visualize the 16S rRNA data.Here we present a tutorial
with minimum working examples to demonstrate usage and dependencies.

Kai Guo

microbial

Do 16s Data Analysis and Generate Figures

Pan Gao

prefilter function

<dl><dt>physeq</dt>
<dd>A <code>phyloseq</code> object containing merged information of abundance,
taxonomic assignment, sample data including the measured variables and categorical information
of the samples, and / or phylogenetic tree if available.</dd>
<dt>min</dt>
<dd>Numeric, the threshold for mininal Phylum shown in samples</dd>
<dt>perc</dt>
<dd>Numeric, input the percentage of samples for which to filter low counts.</dd></dl>

Arguments

Author

filter the phyloseq — prefilter

<dl>

<dt>physeq</dt>
<dd>A <code>phyloseq</code> object containing merged information of abundance,
taxonomic assignment, sample data including the measured variables and categorical information
of the samples, and / or phylogenetic tree if available.</dd>


<dt>min</dt>
<dd>Numeric, the threshold for mininal Phylum shown in samples</dd>


<dt>perc</dt>
<dd>Numeric, input the percentage of samples for which to filter low counts.</dd>

</dl>

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prefilter: filter the phyloseq

Description

Usage

Value

Arguments

Author

Examples