Reshape the MSstats results file from long to wide format — artmsResultsWide • artMS
Description: Converts the normal MSStats results.txt file into "wide" format where each row represents a unique protein's results, and each column represents the comparison made by MSStats. The fold change and p-value of each comparison will be its own column.

# Reshape the MSstats results file from long to wide format

Source: `R/MSstats_functions.R`
`artmsResultsWide.Rd`

Converts the normal MSStats results.txt file into "wide" format where each row represents a unique protein's results, and each column represents the comparison made by MSStats. The fold change and p-value of each comparison will be its own column.

    artmsResultsWide(
      results_msstats,
      output_file = NULL,
      select_pvalues = c("adjpvalue", "pvalue"),
      species,
      verbose = TRUE
    )

## Arguments

results_msstats | (char) Input file name and location (MSstats `results.txt` file)
output_file | (char) Output file name and location (e.g. `results-wide.txt`). If `NULL` (default) returns an R object (data.frame)
select_pvalues | (char) Either `pvalue` or `adjpvalue` (default)
species | (char) Specie name for annotation purposes. Check `?artmsMapUniprot2Entrez` to find out more about the supported species (e.g `species = "human"`)
verbose | (logical) `TRUE` (default) shows function messages

## Value

(output file tab delimited) reshaped file with unique protein ids and as many columns log2fc and adj.pvalues as comparisons available

## Examples

    ph_results_wide <- artmsResultsWide(
                             results_msstats = artms_data_ph_msstats_results,
                             output_file = NULL,
                             species = "human")
    #> >> RESHAPING MSSTATS RESULTS TO wide FORMAT