I am analyzing H2AZ ChIP seq data. I have the dba.report and dba.peakset which give chromosome number and peak position of differential peaks. I would like to get list of genes corresponding to those peaks. How can I do this?
There are a number of annotation packages available that can work on the GRanges object returned by dba.report() or a bed file. Within Bioconductor, ChIPpeakAnno is popular -- many DiffBind users feed the results into ChIPpeakAnno.