From 6bf0fdb428af1d1d11823f62c5bec6bc71b5813a Mon Sep 17 00:00:00 2001 From: Ming Tang Date: Sat, 8 Apr 2017 22:23:42 -0500 Subject: [PATCH] add SUPERmerge for broad histone peaks --- README.md | 1 + 1 file changed, 1 insertion(+) diff --git a/README.md b/README.md index 9bad820..7e0b24a 100644 --- a/README.md +++ b/README.md @@ -74,6 +74,7 @@ The IgG control is also fine, but because so little DNA is there, you might get 11. [epic: diffuse domain ChIP-Seq caller based on SICER]( /~https://github.com/endrebak/epic). It is a re-writen of SICER for faster processing using more CPUs. (Will try it for broad peak for sure). 12. [Cistrome](http://cistrome.org/Cistrome/Cistrome_Project.html): The best place for wet lab scientist to check the binding sites. Developed by Shierly Liu lab in Harvard. 13. [Accounting for GC-content bias reduces systematic errors and batch effects in ChIP-Seq peak callers](http://biorxiv.org/content/early/2016/12/01/090704) tool in [github](/~https://github.com/tengmx/gcapc) +14. [SUPERmerge]((/~https://github.com/Bohdan-Khomtchouk/SUPERmerge):ChIP-seq coverage island analysis algorithm for broad histone marks **Different parameters using the same program can produce drastic different sets of peaks especially for histone modifications with variable enrichment length and gaps between peaks. One needs to make a valid argument for parameters he uses**