| zrollup {pmartR} | R Documentation |
Applies zrollup function
Description
This function applies the zrollup method to a pepData object for each unique protein and returns a proData object.
Usage
zrollup(pepData, combine_fn, parallel = TRUE)
Arguments
pepData |
an omicsData object of class 'pepData' |
combine_fn |
logical indicating what combine_fn to use, defaults to median, other option is mean |
parallel |
logical indicating whether or not to use "doParallel" loop in applying zrollup function. Defaults to TRUE. |
Details
In the zrollup method, peptides are scaled as, pep_scaled = (pep - median)/sd, and protein abundance is set as the mean of these scaled peptides.
Value
an omicsData object of class 'proData'
References
Polpitiya, A. D., Qian, W.-J., Jaitly, N., Petyuk, V. A., Adkins, J. N., Camp, D. G., ... Smith, R. D. (2008). DAnTE: a statistical tool for quantitative analysis of -omics data. Bioinformatics (Oxford, England), 24(13), 1556-1558.