getRunQualityTemplate

Get an mzQC runQuality without actual metrics, but with full metadata

Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool).
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015)
<doi:10.1021/acs.jproteome.5b00780>.

Chris Bielow

PTXQC

Quality Report Generation for MaxQuant and mzTab Results

getRunQualityTemplate function

<dl><dt>fc.raw.file</dt>
<dd>For which run</dd>
<dt>raw_file_mapping</dt>
<dd>A data.frame with cols 'from', 'to' and maybe 'best.effort' (if shorting was unsuccessful), as e.g. obtained by a FilenameMapper$raw_file_mapping</dd></dl>

Arguments

Get an mzQC runQuality without actual metrics, but with full metadata — getRunQualityTemplate

<dl>

<dt>fc.raw.file</dt>
<dd>For which run</dd>


<dt>raw_file_mapping</dt>
<dd>A data.frame with cols 'from', 'to' and maybe 'best.effort' (if shorting was unsuccessful), as e.g. obtained by a FilenameMapper$raw_file_mapping</dd>

</dl>

getRunQualityTemplate: Get an mzQC runQuality without actual metrics, but with full metadata

Description

Usage

Value

Arguments