plot_protein

Displays the underlying data for a protein.

An implementation of the MaxLFQ algorithm by
Cox et al. (2014) <doi:10.1074/mcp.M113.031591> in a comprehensive
pipeline for processing proteomics data in data-independent acquisition mode
(Pham et al. 2020 <doi:10.1093/bioinformatics/btz961>).
It offers additional options for protein quantification using
the N most intense fragment ions, using all fragment ions, and
a wrapper for the median polish algorithm by Tukey (1977, ISBN:0201076160).
In general, the tool can be used to integrate multiple
proportional observations into a single quantitative value.

Thang Pham

Protein Quantification in Mass Spectrometry-Based Proteomics

Alex Henneman

plot_protein function

<dl><dt>X</dt>
<dd>Protein data matrix.</dd><dt>main</dt>
<dd>Title of the plot.</dd><dt>col</dt>
<dd>Colors of the rows of the data matrix.</dd><dt>split</dt>
<dd>Fraction of the plotting area for the main figure. The remaining one is for legend. Set this parameter to <code>NULL</code> to ignore the legend area.</dd><dt>...</dt>
<dd>Additional parameters for plotting.</dd></dl>

Arguments

Author

Plotting the underlying quantitative data for a protein — plot_protein

<dl>

<dt>X</dt>
<dd>Protein data matrix.</dd>

<dt>main</dt>
<dd>Title of the plot.</dd>

<dt>col</dt>
<dd>Colors of the rows of the data matrix.</dd>

<dt>split</dt>
<dd>Fraction of the plotting area for the main figure. The remaining one is for legend. Set this parameter to <code>NULL</code> to ignore the legend area.</dd>

<dt>...</dt>
<dd>Additional parameters for plotting.</dd>

</dl>

plot_protein: Plotting the underlying quantitative data for a protein

Description

Usage

Value

Arguments

Author

References

Examples