RTCGA (version 1.2.2)

datasetsTCGA: RTCGA.data - The Family of R Packages with Data from The Cancer Genome Atlas Study

Description

Snapshots of the clinical, mutations, CNVs, rnaseq, RPPA, mRNA, miRNASeq and methylation datasets from the 2015-11-01 release date (check all dates of release with checkTCGA('Dates')) are included in the RTCGA.data family (factory) that contains 9 packages:

• RTCGA.rnaseq rnaseq
• RTCGA.clinical clinical
• RTCGA.mutations mutations
• RTCGA.CNV CNV
• RTCGA.RPPA RPPA
• RTCGA.mRNA mRNA
• RTCGA.miRNASeq miRNASeq
• RTCGA.methylation methylation
• RTCGA.PANCAN12 (not from TCGA)

Issues

If you have any problems, issues or think that something is missing or is not clear please post an issue on https://github.com/RTCGA/RTCGA/issues.

Details

For more detailed information visit RTCGA.data website https://rtcga.github.io/RTCGA. One can install all data packages with installTCGA.

See Also

RTCGA website http://rtcga.github.io/RTCGA.

Other RTCGA: RTCGA-package, boxplotTCGA, checkTCGA, convertTCGA, downloadTCGA, expressionsTCGA, heatmapTCGA, infoTCGA, installTCGA, kmTCGA, mutationsTCGA, pcaTCGA, readTCGA, survivalTCGA, theme_RTCGA

Examples

# installation of packages containing snapshots
# of TCGA project's datasets

## Not run: 
# 
# ## RTCGA GitHub development newest versions
# library(RTCGA)
# ?installTCGA
# 
# ## Bioconductor releases
# source('http://bioconductor.org/biocLite.R')
# biocLite(RTCGA.clinical)
# biocLite(RTCGA.mutations)
# biocLite(RTCGA.rnaseq)
# biocLite(RTCGA.CNV)
# biocLite(RTCGA.RPPA)
# biocLite(RTCGA.mRNA)
# biocLite(RTCGA.miRNASeq)
# biocLite(RTCGA.methylation)
# 
# # use cases and examples + more data info
# browseVignettes('RTCGA')
# ## End(Not run)