From 38234440cd6860335401550889c481a54d43500e Mon Sep 17 00:00:00 2001
From: Venkat Malladi <Venkat.Malladi@utsouthwestern.edu>
Date: Wed, 28 Dec 2016 15:32:29 -0600
Subject: [PATCH] Add in potential histone processing.

---
 histone_centered_processing.sh | 8 ++++++++
 1 file changed, 8 insertions(+)
 create mode 100644 histone_centered_processing.sh

diff --git a/histone_centered_processing.sh b/histone_centered_processing.sh
new file mode 100644
index 0000000..262a63d
--- /dev/null
+++ b/histone_centered_processing.sh
@@ -0,0 +1,8 @@
+# Processing Histone centric data
+
+bedops --everything  H3K4me1_filtered_peaks.bed H3K27ac_filtered_peaks.bed | bedops -m --range -1 - > Histone_putative_enhancers.bed
+
+# RPKM Filtering
+# Get RPKM
+./rpkm.py --peaks Histone_putative_enhancers.bed --experiments h3k4me1_list.csv -f H3K4me1_hc
+./rpkm.py --peaks Histone_putative_enhancers.bed --experiments h3k27ac_list.csv -f H3K27ac_hc
-- 
GitLab