runPathoStat: Statistical Microbiome Analysis on the pathostat input and...

Description Usage Arguments Value Examples

Description

Statistical Microbiome Analysis on the pathostat input and generates a html report and produces interactive shiny app plots

Usage

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runPathoStat(pstat = NULL, report_file = "PathoStat_report.html",
    report_dir = ".", report_option_binary = "111111111",
    view_report = FALSE, interactive = TRUE)

Arguments

pstat

phyloseq extension pathostat object

report_file

Output report file name

report_dir

Output report directory path

report_option_binary

9 bits Binary String representing the plots to display and hide in the report

view_report

when TRUE, opens the report in a browser

interactive

when TRUE, opens the interactive shinyApp

Value

outputfile The output file with all the statistical plots

Examples

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