identify differences between two ChIP-seq peak files

[jiaoyinming]

I am wondering if I have two ChIP-seq peak files, how can I get the differences between them.

Is there any statistic method to compare two samples such as NRSF (a transcript factor) binding sites in different tissues?

[biznatch]

I don't think there's any ideal tool for this, but this thread might help.

[jiaoyinming]

I don't think there's any ideal tool for this, but this thread might help.

Thank you biznatch. It's helpful.