I am interested in using your probabilistic method (TIP) on some mouse ChIP-seq data. I downloaded the code (http://archive.gersteinlab.org/proj/tftarget/) , but I see that the code is very specific to human genome. As you did some analysis on the mouse TFs as well in the paper, I was wondering if you have a modified code for the mouse genome ? I would appreciate any kind of help. Thank you !
Our collaborator set up a websever to tun TIP at http://syslab3.nchu.edu.tw/TIP/
You can choose to upload your data and get it run on the server. If you have many ChIP-seq files, you can download the package from the website and run it in your own computer.