The package has been moved to PNNL-Comp-Mass-Spec as MSnSet.utils. This repository may or may not be maintained.

vp.misc

Installation

Make sure package devtools is installed.

To install vp.misc run

devtools::install_github("vladpetyuk/vp.misc")

By default install_github does not compile vignettes. Thus to compile with vignettes use the following options.

devtools::install_github("vladpetyuk/vp.misc", build = TRUE, build_opts = c("--no-resave-data", "--no-manual"))

Description

This is a collection of misc custom functions. They are primarily geared towards proteomics/perhaps-other-omics data analysis using MSnSet or ExpressionSet as data containers.

• heatmaps
• colorschemes
• nested linear models
• wrappers for the machine learning routines
• custom imputation
• reading of MaxQuant and SkyLine data
• handling PTM mapping