This function reduces the variation associated with sequentcing depths remaining after a log transformation. The output is the main data object for the downstream shape change detection miscGlobal.
1 2 | normalize_data(datalog, rawmat, exonset, loop = TRUE, center.type = 1,
smoothness = 0.7, draw.plot = FALSE, main = "Gene", ...)
|
datalog |
log-transformed data matrix (e.g. object from logtransform_data) |
rawmat |
raw coverage data matrix |
exonset |
exon/intron annotation matrix from process_data |
loop |
logical, whether to repeat correcting variation by fitting smooth curve. Default is TRUE. |
draw.plot |
logical, whether to plot variation with respect to overall expression with fitted curve. Default is FALSE |
main |
title for a plot. Default is "Gene". |
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