Overview
Publication
Methods Mol Biol. 2016; 1352(NA):127-42.
PubMed ID: 26490472
Title
Analyzing peptide microarray data with the R pepStat package
Authors
Imholte G, Sauteraud R, Gottardo R
Abstract
In this chapter we demonstrate the use of R Bioconductor packages pepStat and Pviz on a set of paired peptide microarrays generated from vaccine trial data. Data import, background correction, normalization, and summarization techniques are presented. We introduce a sliding mean method for amplifying signal and reducing noise in the data, and show the value of gathering paired samples from subjects. Useful visual summaries are presented, and we introduce a simple method for setting a decision rule for subject/peptide responses that can be used with a set of control peptides or placebo subjects.
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