getAlts: getAlts
In chrisamiller/copyCat: Find regions of genomic copy number loss and gain from short reads

takes a data frame of segments and extracts just those containing copy-number gains and losses (that exceed the gain/loss thresholds)

1	getAlts(segs,rdo)

`segs`	a 5-col data frame that is the result of calling cnSegments
`rdo`	a readDepth object

a data frame containing only segments of CN gain and loss

'cnSegments'

  ##get regions of CN gain and loss
  #  segs <- cnSegments(x)

  ##extract just the gains and losses
  #  alts <- getAlts(segs,x)

chrisamiller/copyCat documentation built on July 20, 2021, 12:59 a.m.

chrisamiller/copyCat index

README.md

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

Description