# HG changeset patch
# User kpbioteam
# Date 1529590086 14400
# Node ID 17b814d78ac62ff788da71cc0df8d83686821bf2
# Parent  ed66a80e81e85d1613415b0ca64db7f79697b7e5
planemo upload for repository https://github.com/kpbioteam/chipeakanno_annopeaks commit 5ee10ba73cd634a41b84f059f02edeaa04f69b8d-dirty

diff -r ed66a80e81e8 -r 17b814d78ac6 chipeakanno_annopeaks.R
--- a/chipeakanno_annopeaks.R	Wed Jun 20 06:59:04 2018 -0400
+++ b/chipeakanno_annopeaks.R	Thu Jun 21 10:08:06 2018 -0400
@@ -1,8 +1,3 @@
-source("https://bioconductor.org/biocLite.R")
-biocLite("ChIPpeakAnno")
- 
-biocLite("rtracklayer")
-
 require("ChIPpeakAnno", quietly = TRUE)
 require("EnsDb.Hsapiens.v75", quietly = TRUE)
 require("rtracklayer", quietly = TRUE)
@@ -21,7 +16,7 @@
 DMRInfo <-  read.table(input1)
 peaks <- GRanges(seqnames = DMRInfo[, 1],
                     ranges = IRanges
-                    (start = DMRInfo[, 2], end = DMRInfo[, 3]))
+                    (start = DMRInfo[, 2], end = DMRInfo[, 3],score=DMRInfo[, 9]))
 
 annoData <- toGRanges(EnsDb.Hsapiens.v75)
 seqlevelsStyle(peaks) <- seqlevelsStyle(annoData)