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cancerTiming (version 3.1.8)

makeEventHistory: Create the event history matrix

Description

Create the event history matrix needed for the event timing algorithm

Usage

makeEventHistory(type = c("gain", "LOH"), copies = NULL, 
	totalCopy = sum(copies), onlyIdentifiable = TRUE)

Arguments

type
copies
a vector of length 2, giving the number of copies of the maternal and paternal chromosomes
totalCopy
an integer between 2 and 5. totalCopy must be the sum of the numbers given for the argument copies
onlyIdentifiable
logical. Only return event matrices corresponding to event histories with identifiable $\pi_0$?

Value

  • The A matrix relates allele frequencies to the event history. The vector $A \pi$ gives the probabilities of each allele frequency possible for the specified event.

References

Purdom, E, et al. (submitted). ``Timing Chromosomal Abnormalities within Cancer Samples.''

Examples

Run this code
makeEventHistory(type="gain",totalCopy=8)
makeEventHistory(type="gain",copies=c(1,4),totalCopy=5,onlyIdentifiable=FALSE)

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