cnaHMM: Call CNA using a HMM approach

In jmonlong/scCNAutils: Functions to analyze copy number aberrations in single-cell data

Call CNA using a HMM approach

Description

Call CNA using a HMM approach

Usage

cnaHMM(
  ge,
  trans.prob = 1e-04,
  log.mu = TRUE,
  max.samps = 200,
  perChr = TRUE,
  winsorize = TRUE
)

Arguments

ge	the input gene expression
trans.prob	the transition probability
log.mu	should the mu be log-scaled?
max.samps	the maximum number of samples accepted.
perChr	run on each chromosome separately?
winsorize	winsorize zscores to limit the effect of extreme outliers.

Value

a data.frame with info about CNA segments

Author(s)

Jean Monlong

jmonlong/scCNAutils documentation built on Feb. 8, 2025, 8:09 a.m.