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sorting my data based on p-value

I have on eSet and I want to sort my expression values related to probIDs, based on P-Value

Please guide me

r statistics
• 7,940 views • link
updated by Ram Ram • written by Shamim Sarhadi Shamim Sarhadi

1 answer

eSet objects accept the [ accessor, so:

  1. Get the p-values
  2. order() them
  3. Take the eSet, e, and e[o,], where o is the order.

BTW, this isn't a bioinformatics question.

• 0 views • link
updated by Ram Ram • written by Devon Ryan Devon Ryan

Thank you Mr Devon Ryan but I'm new in R, actually I need codes that I could get p-values for my eSet,

I appreciate for your help

best

• 0 views • link
updated by Ram Ram • written by Shamim Sarhadi Shamim Sarhadi

If your data.frame is eSet and the p-value column is names "p-value", so:

eSet.ordered <- eSet[order(eSet$pvalue),]

more information in R : ?order

• 0 views • link
updated by Ram Ram • written by Nicolas Rosewick Nicolas Rosewick
I Think the OP's eSet object is not a data frame with results of differential expression testing but an Expression set object as defined by the affy-package. So probably the OP doesn't even have p-values yet...
• 0 views • link
written by Irsan Irsan

I recommend to learn R, then you don't have to bother yourself asking a lot of minor questions on any thing you want to do. :)

Here is a good guide: A few words for R beginners

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updated by Ram Ram • written by Parham Parham

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