Parameters: Cannot Extract Particular Mass

Topic: Parameters: Cannot Extract Particular Mass (Read 15470 times) previous topic - next topic

Re: Parameters: Cannot Extract Particular Mass

Reply #15 – February 13, 2012, 06:25:21 PM

The intensity of this feature is extremely low (~200) and it consists of only 3 data points above the baseline (centWave requires a absolute minimum of 4 data points)
It looks much more like a spike than a feature and is therefore rejected by centWave.
It can be detected by reducing the minPtsAboveBaseLine parameter to 3, but this parameter is currently not changeable in XCMS or XCMS Online.

Re: Parameters: Cannot Extract Particular Mass

Reply #16 – February 21, 2012, 07:58:45 AM

Hi Ralf,

Thank you for looking into this and for your reply. Is this parameter "minPtsAboveBaseLine" going to become changeable in the near future?

Thank you very much!
Majda

Re: Parameters: Cannot Extract Particular Mass

Reply #17 – February 28, 2012, 11:33:06 AM

Yes, it will probably be added as an extended option.

Re: Parameters: Cannot Extract Particular Mass

Reply #18 – March 07, 2013, 10:06:02 AM

Hi,

it has been a while since I posted. I just have a quick question regarding the "minPtsAboveBaseLine" option, and if it is available for tweaking in the online XCMS version at this time? This is important for some features I would like to be able to extract using XCMS.

Thank you!

Majda

Re: Parameters: Cannot Extract Particular Mass

Reply #19 – March 08, 2013, 12:47:05 PM

Thank you for the reminder. We'll add that option soon.