[BioC] running time of snapCGH processCGH and runDNAcopy

[Sean Davis]

jhs1jjm at leeds.ac.uk wrote:
> Hi Caimiao,
> 
> For me, the DNAcopy segmentation function ran quicker in the actually
> DNAcopy package than it did in the snapCGH package, not sure why but I
> do know they made some speed improvements in the CBS algorithm that may
> not have been implemented in snapCGH. It may be worth investigating
> using the actual DNAcopy package, especially if snapCGH is crashing on
> you. If anyone feels this is wrong feel to correct me, just thought I
> should contribute as I've made heavy use of this mailing list myself!

Hi, John.

Just to clarify, snapCGH uses the DNAcopy package.  They are not
different implementations.

Sean