Hi all,
I am annotating peaks from a ChIP-seq experiment.
The problem I face is that some of the peaks fall on bidirectional promoters.
I would like to be able to get an output annotation that gives me information about the nearest TSS on the + strand AND on the - strand, and not only selecting the closest one, regardless of the strand.
I don't think HOMER can do this (correct me if I'm wrong), and also tried ChIPpeakAnno and ChIPseeker but I would like to know if there is a tool that could be advised in that context?
Thanks a lot!
Sarah
I am annotating peaks from a ChIP-seq experiment.
The problem I face is that some of the peaks fall on bidirectional promoters.
I would like to be able to get an output annotation that gives me information about the nearest TSS on the + strand AND on the - strand, and not only selecting the closest one, regardless of the strand.
I don't think HOMER can do this (correct me if I'm wrong), and also tried ChIPpeakAnno and ChIPseeker but I would like to know if there is a tool that could be advised in that context?
Thanks a lot!
Sarah