Mercurial > repos > testtool > annotate_peak

diff annotatePeak/.Rhistory @ 1:92387cb81962 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author testtool
date Sat, 25 Feb 2017 11:18:27 -0500
parents 5d70366e7c6f
children 7beb1a8f7cb0
line wrap: on
line diff
--- a/annotatePeak/.Rhistory	Mon Feb 06 10:53:57 2017 -0500
+++ b/annotatePeak/.Rhistory	Sat Feb 25 11:18:27 2017 -0500
@@ -154,3 +154,20 @@
 dev.off()
 png(figure)
 upsetplot(anno, vennpie=TRUE)
+org.Hs.eg.db
+??org.Hs.eg.db
+require("ChIPseeker", quietly = TRUE)
+require("ChIPpeakAnno", quietly = TRUE)
+DMRInfo = read.table(
+DMR,
+header = FALSE,
+sep = "\t",
+stringsAsFactors = FALSE,
+quote = ""
+)
+DMRPeaks <- GRanges(seqnames = DMRInfo[, 1],
+ranges = IRanges
+(start = DMRInfo[, 2], end = DMRInfo[, 3]))
+annotatePeak <-
+as.data.frame(annotatePeak(DMRPeaks, level = "gene", annoDb = "org.Hs.eg.db"))
+??org.Hs.eg.db