MzQCinputFile-class

MzQCinputFile

An inputfile within metadata for a run/setQuality

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

MzQCinputFile-class function

<dl>
<dt><code>name</code></dt>
<dd>The name MUST uniquely match to a location (specified below) listed in the mzQC file.</dd></dl>
<dt><code>location</code></dt>
<dd>Unique file location, REQUIRED to be specified as a URI. The file URI is RECOMMENDED to be publicly accessible.</dd>
<dt><code>fileFormat</code></dt>
<dd>A MzQCcvParameter with 'accession' and 'name'.</dd>
<dt><code>fileProperties</code></dt>
<dd>An array of MzQCcvParameter, usually with 'accession', 'name' and 'value'. Recommended are at least two entries: 
a) Completion time of the input file (MS:1000747) and b) Checksum of the input file (any child of: MS:1000561 ! data file checksum type).</dd>

Fields

An inputfile within metadata for a run/setQuality — MzQCinputFile-class

<dl>
<dt><code>name</code></dt>
<dd>The name MUST uniquely match to a location (specified below) listed in the mzQC file.</dd>


<dt><code>location</code></dt>
<dd>Unique file location, REQUIRED to be specified as a URI. The file URI is RECOMMENDED to be publicly accessible.</dd>


<dt><code>fileFormat</code></dt>
<dd>A MzQCcvParameter with 'accession' and 'name'.</dd>


<dt><code>fileProperties</code></dt>
<dd>An array of MzQCcvParameter, usually with 'accession', 'name' and 'value'. Recommended are at least two entries: 
a) Completion time of the input file (MS:1000747) and b) Checksum of the input file (any child of: MS:1000561 ! data file checksum type).</dd>


</dl>

MzQCinputFile-class: An inputfile within metadata for a run/setQuality

Description

Arguments

Fields