replaces any NA (and optionally zero) values with small signal (20
rc.cmpd.replace.na(
ramclustObj = NULL,
replace.int = 0.1,
replace.noise = 0.1,
replace.zero = TRUE
)ramclustR object with NA and zero values removed.
ramclustObj containing SpecAbund dataset
default = 0.2. proportion of minimum feature value to replace NA (or zero) values with
default = 0.2. proportion ofreplace.int value by which noise is added via 'jitter'
logical if TRUE, any zero values are replaced with noise as if they were NA values
Corey Broeckling
noise is added by finding for each feature the minimum detected value, multiplying that value by replace.int, then adding (replace.int*replace.noise) noise. abs() is used to ensure no negative values result.
Broeckling CD, Afsar FA, Neumann S, Ben-Hur A, Prenni JE. RAMClust: a novel feature clustering method enables spectral-matching-based annotation for metabolomics data. Anal Chem. 2014 Jul 15;86(14):6812-7. doi: 10.1021/ac501530d. Epub 2014 Jun 26. PubMed PMID: 24927477.