Question: converting log-odds ratio to p-value in HOMER
1
gravatar for sumithrasank75
2.6 years ago by
United States
sumithrasank75140 wrote:

I used scanMotifGenomeWide.pl for a certain motif and the output is a bed file which reports the log-odds score for finding the motif at a given chromosomal location. I want to know how to convert the log-odds ratio to a p-value so that I can filter the bed file by a p-value cutoff. Thanks

chip-seq • 1.5k views
ADD COMMENTlink written 2.6 years ago by sumithrasank75140

A quick google search led me to an online tool for computing p-values from log-odds, and to a nice blog showing how to perform the computation in R. Not being an expert on the topic, I do not know if they are formally correct. But on a fake example they gave the same result!

ADD REPLYlink written 2.6 years ago by Fabio Marroni2.6k
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