This function identifies local shape variants by mining locally on/off abnormalities.
1 2 3 | detect_localout(resmat, rawmat, exonset, ADcutoff = 3, winlength = 100,
readconstr = 10, siglev = NULL, cutoff = NULL,
less.return = TRUE)
|
resmat |
a residual matrix from PCA, a data matrix subtracted by a low-rank matrix. |
rawmat |
a raw coverage matrix, dataI from process_data |
exonset |
exon/intron annotation matrix from annotate_pileup |
winlength |
the window size. Default is 100. |
readconstr |
the minimum reads count required to be considered for on/off local shape changes. Default is 10. |
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