PeakSegJointHeuristicStep2 function

PeakSegJointHeuristicStep2

Run the first and second steps of the PeakSegJoint fast heuristic optimization algorithm. Step2 the SearchNearPeak subroutine described in the JointZoom Algorithm of arXiv:1506.01286, and it is guaranteed to return feasible segmentations (seg1 < seg2 > seg3). NB: this function is only for testing the C code against the R implementation (search tests/testthat/*.R files for Step2). For real data see PeakSegJointSeveral.

PeakSegJointHeuristicStep2(profiles, 
    bin.factor = 2L)

Arguments

• profiles: List of data.frames with columns chromStart, chromEnd, count, or single data.frame with additional column sample.id.
• bin.factor: Size of bin pyramid. Bigger values result in slower computation.

Returns

List of model fit results, which can be passed to ConvertModelList

for easier interpretation.

Author(s)

Toby Dylan Hocking toby.hocking@r-project.org [aut, cre]