Hi,

I am trying to visualise my overlapped chip-seq peak regions which I analysed with Homer mergePeaks function. I have got one venn info file and a "result" file. I would like to use that venn info file then visualise it but when I looked for visualisation libraries or programs, I did not find a method which merits my expectations.

the primary problem is my data is big. ( relatively :) ). I have 19 datasets in one conditions group and 9 datasets in healthy one. I have read making venn diagram for more than 3 datasets would not be smart on biostar tread.

I am trying to find overlapped regions of transcriptional factors that why I wanna know which transcriptional factors sites are most common.

I am a python coding and R mediocre.

Please don't link me to https://www.biostars.org/p/77362/ and https://www.biostars.org/p/66091/ threads I have already read them 0192308 times), also if you think homer is not the best tool for finding the overlaps, please feel free to advice others. (Yes, I do know monkseq)

Thank you very much for your help.

Best regards,  
Tunc
Another alternative is a "binary heatmap". It scales better than a Venn diagram, though combinatorial binding of 19 factors is going to be complex no matter what way you look at it.

Here's a working example: https://gist.github.com/daler/07eb1a95f1e4639f22bd