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.
So far, I have tried DiffBind R library to this but I couldn't have figured out its class structure. Also, Venndiagram and Vennerable did not quit work for me due the output of the homer does not merit the object requirements of both of the libraries.
I am trying to find overlapped regions of transcriptional factors that why I wanna know which transcriptional factors sites are most common.
I am python coding and R mediocre.
Please don't post me (Venn/Euler Diagram Of Four Or More Sets and Draw Diagrams For Intersection Between Many Sets 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. I have been dealing this step of my project for a week. So I am very frustrated.