Feature score

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Feature score

January 09, 2013, 06:39:14 PM

Hello,

The XCMS online results table contains a column named "feature score" which is the COMBSUM of the p-value and maxint. Could you explain what this means? How is it calculated?

Thanks,
Andrew

Re: Feature score

Reply #1 – January 09, 2013, 07:25:06 PM

It was an experimental score to rank unidentified features using measures of "importance" like p-value and intensity, calculated using the combined ranks of p-value and intensity.
It did not work out very well and is actually going to be removed soon - we'll hopefully find something better.

To prioritize features for ID I would recommend using the filter tool (magnifying glass, top left corner) and filtering the result table using multiple criteria, e.g. p-value < 0.001 AND fold change > 2 AND maxInt > 2000.

Re: Feature score

Reply #2 – January 21, 2013, 12:41:44 PM

fscore has been removed now.

Instead, other columns have been added: up/downregulation (UP/DOWN) and log2fold (log 2 fold change, signed).