CNV.bin {conumee} | R Documentation |
Combine single probe intensitiy values into predefined bins.
CNV.bin(object, ...) ## S4 method for signature 'CNV.analysis' CNV.bin(object)
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Additional parameters ( |
The median intensity per bin is calculated. Bins are defined using CNV.create_anno
. A value by which all probe and bin intensity values are shifted in subsequent analysis steps is calculated by minimizing the median absolute deviation from all bins to zero (ideally shifting the copy-neutral state to 0).
CNV.analysis
object.
Volker Hovestadt conumee@hovestadt.bio
# prepare library(minfiData) data(MsetEx) d <- CNV.load(MsetEx) data(detail_regions) anno <- CNV.create_anno(detail_regions = detail_regions) # create object x <- CNV.fit(query = d['GroupB_1'], ref = d[c('GroupA_1', 'GroupA_2', 'GroupA_3')], anno) # modify object x <- CNV.bin(x) #x <- CNV.detail(x) #x <- CNV.segment(x) # general information x show(x) # coefficients of linear regression coef(x) # show or replace sample name names(x) names(x) <- 'Sample 1'