Data packages not yet submitted to Bioconductor from 2016-01-28 release date of TCGA data.
Data packages submitted to Bioconductor from 2015-11-01 release date of TCGA data.
RTCGA
family:Windows users:
Make sure you have rtools installed on your computer.
# some packages might be still only available on the devel version of Bioconductor
BiocInstaller::useDevel() # swiches to devel branchof Bioconductor - don't use this line if you are interested in release versions
source("https://bioconductor.org/biocLite.R") # downloads bioClite function
|package |installation |help |releaseDate |
|:--------------------------|:----------------------------------------|:-----------------------|:------------|
|RTCGA.rnaseq.20160128 |biocLite('RTCGA.rnaseq.20160128')
|?rnaseq.20160128
|2016-01-28
|
|RTCGA.clinical.20160128 |biocLite('RTCGA.clinical.20160128')
|?clinical.20160128
|2016-01-28
|
|RTCGA.mutations.20160128 |biocLite('RTCGA.mutations.20160128')
|?mutations.20160128
|2016-01-28
|
|RTCGA.mRNA.20160128 |biocLite('RTCGA.mRNA.20160128')
|?mRNA.20160128
|2016-01-28
|
|RTCGA.miRNASeq.20160128 |biocLite('RTCGA.miRNASeq.20160128')
|?miRNASeq.20160128
|2016-01-28
|
|RTCGA.RPPA.20160128 |biocLite('RTCGA.RPPA.20160128')
|?RPPA.20160128
|2016-01-28
|
|RTCGA.CNV.20160128 |biocLite('RTCGA.CNV.20160128')
|?CNV.20160128
|2016-01-28
|
|RTCGA.methylation.20160128 |biocLite('RTCGA.methylation.20160128')
|?methylation.20160128
|2016-01-28
|
|RTCGA.rnaseq |biocLite('RTCGA.rnaseq')
|?rnaseq
|2015-11-01
|
|RTCGA.clinical |biocLite('RTCGA.clinical')
|?clinical
|2015-11-01
|
|RTCGA.mutations |biocLite('RTCGA.mutations')
|?mutations
|2015-11-01
|
|RTCGA.mRNA |biocLite('RTCGA.mRNA')
|?mRNA
|2015-11-01
|
|RTCGA.miRNASeq |biocLite('RTCGA.miRNASeq')
|?miRNASeq
|2015-11-01
|
|RTCGA.PANCAN12 |biocLite('RTCGA.PANCAN12')
|?pancan12
|NULL
|
|RTCGA.RPPA |biocLite('RTCGA.RPPA')
|?RPPA
|2015-11-01
|
|RTCGA.CNV |biocLite('RTCGA.CNV')
|?CNV
|2015-11-01
|
|RTCGA.methylation |biocLite('RTCGA.methylation')
|?methylation
|2015-11-01
|
Packages from the RTCGA.data
- family/factory are based on the RTCGA
package
RTCGA
package:To get started, install the latest version of RTCGA from Bioconductor:
BiocInstaller::useDevel() # swiches to devel branch of Bioconductor
source("https://bioconductor.org/biocLite.R") # downloads bioClite function
biocLite("RTCGA") # installs a package
or use below code to download the development version which is like to be less bugged than the release version on Bioconductor:
if (!require(devtools)) {
install.packages("devtools")
require(devtools)
}
install_github("RTCGA/RTCGA", build_vignettes = TRUE)
To check Use Cases run
browseVignettes("RTCGA")
Marcin Kosiński, m.p.kosinski@gmail.com
Przemysław Biecek, przemyslaw.biecek@gmail.com
Witold Chodor, witoldchodor@gmail.com
This repository is synchronized with it's Bioconductor's SVN devel mirror.
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