group or peakTable problem

Topic: group or peakTable problem (Read 12749 times) previous topic - next topic

Re: group or peakTable problem

Reply #15 – December 20, 2012, 03:55:00 AM

I also observe that group.nearest produces more feature groups, but more doesn't mean "better"
But I haven't had the time to really compare both methods, so normally I stick to density, because I'm more familiar with it.

I spoke with Ralf about the group.density problem and we removed the threshold in the next xcms version,
because it's unnecessary.

That should also fix your problem.

Carsten

Re: group or peakTable problem

Reply #16 – December 20, 2012, 06:01:28 PM

Thanks Carsten and Ralf. I will upgrade soon then!
Corey

Re: group or peakTable problem

Reply #17 – December 20, 2012, 07:39:31 PM

Thank you Carsten for looking into this.
XCMS version 1.35.3 includes the patch. Pull from SVN now or get it from BioC in a day or two.

Corey, please let us know if that fixes your problem.

Ralf