[Useq-users] balanced number of reads?

[Noboru Jo S. <ns...@uc...>]

    Hi David, I ran Useq on a sample that has a lot fewer reads than input.
    I got very few peaks.
    Then I balanced treatment and input, randomly selecting reads from 
input.
    Then I got ~14k peaks at FDR 4%. QuEST had also found a similar 
number of peaks.
    I know that balancing reads is an issue in MACS, I would like to 
know if this is also true for Useq. I believe it is, given my results, 
but could you comment on this?
    Thank you!

noboru