README.md

In waldronlab/curatedMetagenomicDataCurationShiny: Tools for getting and checking sample metadata for inclusion in curatedMetagenomicData

curatedMetagenomicDataShinyApp

A shiny tool for the get_metadata and checkCuration functions of the curatedMetagenomicDataCuration package.

Installation

if (!"BiocManager" %in% installed.packages()[,"Package"])
    install.packages("BiocManager")
BiocManager::install("waldronlab/curatedMetagenomicDataShinyApp") 

Run the app

library(curatedMetagenomicDataShinyApp)
myApp()

Example files for checkCuration

There are a few files in inst/extdata that can be downloaded and used to test the shinyApp:

• data_ok_metadata.tsv - no errors (this is a copy of AsnicarF_2017_metadata.csv).
• invalidcol_metadata.tsv - one invalid column.
• invalidvalue_metadata.tsv - invalid values in one column.
• missingcol_metadata.tsv - one of the required columns is missing
• multierror_metadata.tsv- all previous errors

waldronlab/curatedMetagenomicDataCurationShiny documentation built on Dec. 23, 2021, 4:14 p.m.