pep3d

lcmsmap

lcmsoverview

plot.psmSet

The function graphs a LC-MS map having for all charge states and each single charge state.
The rt is on the x axis and the y axis represents the peptide mass.

Helps with quality checks, visualizations
and analysis of mass spectrometry data, coming from proteomics
experiments. The package is developed, tested and used at the Functional
Genomics Center Zurich <https://fgcz.ch>. We use this package
mainly for prototyping, teaching, and having fun with proteomics data.
But it can also be used to do data analysis for small scale data sets.

Christian Panse

protViz

Visualizing and Analyzing Mass Spectrometry Related Data in
Proteomics

Jonas Grossmann

Simon Barkow-Oesterreicher

lcmsmap function

<dl>
 <dt>data</dt>
<dd>an R data object as it can be obtained by <code>mascotDat2RData.pl</code> or 
 by using mascots export function.</dd>
 <dt>charges</dt>
<dd>a vector of charge states to be displayed.</dd>
 <dt>score.cutoff</dt>
<dd>a numeric value taken as score cut-off.</dd> 
 <dt>...</dt>
<dd>pass arguments to <code>plot</code> function.</dd></dl>

Arguments

Christian Panse and Jonas Grossmann 2013;

Author

The function graphs a LC-MS map having for all charge states and each single charge state.
The rt is on the x axis and the y axis represents the peptide mass.

LC-MS Map — lcmsmap

<dl>


 <dt>data</dt>
<dd>an R data object as it can be obtained by <code>mascotDat2RData.pl</code> or 
 by using mascots export function.</dd>


 <dt>charges</dt>
<dd>a vector of charge states to be displayed.</dd>


 <dt>score.cutoff</dt>
<dd>a numeric value taken as score cut-off.</dd>

 
 <dt>...</dt>
<dd>pass arguments to <code>plot</code> function.</dd>

</dl>

Christian Panse and Jonas Grossmann 2013;

lcmsmap: LC-MS Map

Description

Usage

Arguments

Author

References