Mercurial > repos > testtool > get_gr_set

annotate GRsetFromGEO/.Rhistory @ 50:d793e03b4da1 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author testtool
date Thu, 10 Aug 2017 06:19:14 -0400
parents 7511130b5068
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
5
7511130b5068 Uploaded
testtool
parents:
diff changeset
1 require("minfi", quietly = TRUE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
2 ?require
7511130b5068 Uploaded
testtool
parents:
diff changeset
3 require("minfi", quietly = TRUE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
4 minfi
7511130b5068 Uploaded
testtool
parents:
diff changeset
5 as.data.frame(GRset)
7511130b5068 Uploaded
testtool
parents:
diff changeset
6 GRset <- getGenomicRatioSetFromGEO(GSE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
7 getGenomicRatioSetFromGEO
7511130b5068 Uploaded
testtool
parents:
diff changeset
8 require("minfi", quietly = TRUE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
9 options(warn = -1)
7511130b5068 Uploaded
testtool
parents:
diff changeset
10 options("download.file.method"="wget")
7511130b5068 Uploaded
testtool
parents:
diff changeset
11 args <- commandArgs(trailingOnly = TRUE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
12 GSE = args[1]
7511130b5068 Uploaded
testtool
parents:
diff changeset
13 output = args[2]
7511130b5068 Uploaded
testtool
parents:
diff changeset
14 GRset <- getGenomicRatioSetFromGEO(GSE)
7511130b5068 Uploaded
testtool
parents:
diff changeset
15 save(GRset,file = output)
7511130b5068 Uploaded
testtool
parents:
diff changeset
16 sessionInfo()