different segments on CopyNumber plot

[reyescapilla]

Hi,

I am running QDNAseq multiple times on the same readCounts object and following the recommended further steps in the user guide. However, I realized I am obtaining slightly different segmentation results between runs reported on top of the copy number plot.

To improve reproducibility, I already tried:

• setting set.seed(123)
• disabling parallelization with library(BiocParallel) and register(SerialParam())

Is this expected behavior from the segmentation algorithm or could there be another non-deterministic step in the QDNAseq pipeline?

Thank you in advance.