miscLocal: Detect local shape variants in RNA-seq data

In hyochoi/Scissors:

Description

This function discovers outlying subjects whose RNA-seq have "local" abnormal shapes and provides the most outlying window-direction for each outlier.

Usage

miscLocal(miscGlobalobj, covermat, exonset, winlength = 100,
  readconstr = 10, siglev = 1e-05, cutoff = NULL)

Arguments

miscGlobalobj	object from miscGlobal
exonset	data annotation matrix, exonset from process_data
winlength	the window length. Default is 100.
readconstr	the minimum mean read-counts. Default is 10.
siglev	the significance level for a robust outlier detection. Default is 1e-5. IF cutoff is specified, siglev is not used.
cutoff	the cutoff value for outlying statistics. If NULL, the cutoff value is computed based on the specified siglev.
overmat	raw coverage matrix, dataI from process_data

hyochoi/Scissors documentation built on July 3, 2019, 4:48 a.m.