annotate getGEO/.Rhistory @ 17:3d473c9671db draft

Uploaded
author testtool
date Fri, 20 Jan 2017 11:21:52 -0500
parents 2418fe6a0d12
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
11
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
1 first<-getGEO(TAB$ID[1],getGPL=FALSE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
2 require("BiocGenerics",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
3 require("data.table",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
4 require("minfi",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
5 require("ChIPseeker",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
6 require("ChIPpeakAnno",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
7 require("TxDb.Hsapiens.UCSC.hg19.knownGene",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
8 require("FDb.InfiniumMethylation.hg19",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
9 require("GEOquery",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
10 require("rtracklayer",quietly = TRUE)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
11 install.packages("formatR")
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
12 library(formatR)
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
13 getwd()
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
14 tidy_eval("/Users/katarzynamurat/Desktop/galaxy/tools/getGEO")
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
15 tidy_eval("/Users/katarzynamurat/Desktop/galaxy/tools/getGEO")
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
16 source('~/Desktop/galaxy/tools/findDMR/findDMR.R')
2418fe6a0d12 Uploaded
testtool
parents:
diff changeset
17 source('~/Desktop/galaxy/tools/findDMR/findDMR.R')