artmsSpectralCounts {artMS} | R Documentation

## Outputs the spectral counts from the MaxQuant evidence file.

### Description

Outputs the spectral counts from the MaxQuant evidence file.

### Usage

    artmsSpectralCounts(
      evidence_file,
      keys_file,
      output_file = NULL,
      verbose = TRUE
    )

### Arguments

`evidence_file` | (char) Maxquant evidence file or data object
`keys_file` | (char) Keys file with the experimental design or data object
`output_file` | (char) Output file name (add `.txt` extension). If `NULL` (default) it returns a data.frame object
`verbose` | (logical) `TRUE` (default) shows function messages

### Value

A txt file with biological replicates, protein id, and spectral count columns

### Examples

    summary_spectral_counts <- artmsSpectralCounts(
                                     evidence_file = artms_data_ph_evidence,
                                     keys_file = artms_data_ph_keys)

[Package artMS version 1.8.3 Index]