recommanded p value for significant difference and conditionTest()

[AndreaYCT]

Hi,

Thank you for this tool and great explanation in the paper.

I would like to know if you recommended that a p value less than 2.2X10-6 as significant?

Another question is about condRes (the result of conditionTest()). I have subset lineage 1, 2, and 6 to run fitGAM, and I notice that the condRes contains lineage 1, 2, and 3. Can I assume that the lineage 3 in condRes is corresponded to lineage 6 in input?

Many thanks

Andrea

[HectorRDB]

• For the p-value comment, I would need more context ? Are we talking about one test ? Multiple tests and you are reporting the smallest p-value ?
• If you did subset the object to have lineage 6 as the 3rd lineage in FitGam, then yes,