dot-classifyCN: Classify CN into Loss/Neut/Gain

In quevedor2/aneuploidy_score: Calculate the Aneuploidy Score from Chromosome Arm SCNAs/Aneuploidies

Description

Classifies CN aberrations as either a Loss (-1), neutral (0), or gain (1) relative to some ploidy number +/- a threshold

Usage

.classifyCN(
  cn,
  ploidy = 2,
  threshold = 0.5,
  neg_max = -100,
  pos_max = 100,
  verbose = FALSE
)

Arguments

cn	A vector of CN values [Numeric]
ploidy	A numeric value for base ploidy (Default=2) [Numeric]
threshold	A numeric value for the threshold around the ploidy to be considered (e.g. ploidy +/- threshold) (Default=0.5) [Numeric]
neg_max	The maximum negative value (Default=-100)
pos_max	The maximum positive value (Default=100)
verbose	Print warning statements or not

quevedor2/aneuploidy_score documentation built on Feb. 26, 2021, 12:13 p.m.