run.cghseg: run cghseg
In tdhock/bams: Breakpoint annotation model smoothing

Run cghseg maximum likelihood DP segmentation and pick the model using picker.

1	run.cghseg(profile, picker)

`profile`	Profile data.frame.
`picker`	Function that gets arguments const.lines (a data.frame with one line for each segment in the maximum likelihood segmentation for a chrom), smoothed.mat (matrix of smoothed profile for a chrom: kmax x nprobes), Y (vector of logratio measurements for a chrom), kmax (maximum number of segments to consider), n (number of probes), and should return the chosen smoothing vector for the chrom.

Smoothing matrix nparam x nprobes.

Toby Dylan Hocking

tdhock/bams documentation built on May 31, 2019, 7:34 a.m.