[Useq-users] Problem with options for ChipSeq application

[Ketaki B. <kb...@il...>]

Hello,
            I used ChipSeq application of Useq. I had following 
questions regarding the same:

Q. I was not able to set up the window size by typing in -w while 
running ChipSeq application.
It gave me an error of -w is not an option. Please let me know right 
parameter to set the window size

Q.Eventually I want to compare the USeq ChipSeq's application with 
some other software.
It becomes really hard to compare peaks for my data since Useq 
application just gave 7 reduced regions with default
parameters while other sofware gave me several present on different 
chromosomes.
Could you please let me know which parameters need to be changed to 
get maximum number of peaks from USeq's ChipSeq application.


Regards
Ketaki Bhide