Make sure package devtools is installed.
To install MSnSet.utils run
devtools::install_github("PNNL-Comp-Mass-Spec/MSnSet.utils")By default install_github does not compile vignettes. Thus to compile with vignettes use the following options.
devtools::install_github("PNNL-Comp-Mass-Spec/MSnSet.utils", build_vignettes = TRUE)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
- PCA plots
- volcano plots
- wrappers for LIMMA differential analysis pipelines
The orignal location is on the vladpetyuk account, repo vp.misc.