Description Usage Arguments Value Author(s) Examples
This function is to calculate proteins'relative abundance by factor analysis
1 | farmsSummary(dat,group_col=2)
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dat |
an data frame with raw peptide or psm intensities |
group_col |
the column by which peptides/psm intensity are grouped. Usually it is the gene/protein id column. Default is 2 |
a data frame containing protein relative abundance estimate in log2 scale
Yafeng Zhu
1 2 3 4 5 6 | library(ExperimentHub)
eh = ExperimentHub(localHub=TRUE)
query(eh, "DEqMS")
dat.psm = eh[["EH1663"]]
# farms method does not tolerate missing values
dat.gene = farmsSummary(dat.psm,group_col=2)
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