Hello,
I was trying to reproduce the example for custom annotated gene list given here. I downloaded the data from the given url in the example.
I was able to get a similar result and I understand the GeneRatio and BgRatio.
But my case has a single term ID - I pass a TF's target genes in column 2, and column 1 is my annotation “TF”, which is the same for all rows. Input is a list of genes. I wanted to check if the overlap between these two lists is significant.
I try to reproduce it with the example in the documentation.
But I don't understand GeneRatio and BgRatio now, which is what I was getting in my case as well.
Could someone explain me the output when there's only one term ID in TERM2GENE input?
Hello, I was trying to reproduce the example for custom annotated gene list given here. I downloaded the data from the given url in the example. I was able to get a similar result and I understand the
GeneRatioandBgRatio.But my case has a single term ID - I pass a TF's target genes in column 2, and column 1 is my annotation “TF”, which is the same for all rows. Input is a list of genes. I wanted to check if the overlap between these two lists is significant.
I try to reproduce it with the example in the documentation.
But I don't understand
GeneRatioandBgRationow, which is what I was getting in my case as well.Could someone explain me the output when there's only one term ID in TERM2GENE input?