gdcClinicalDownload {GDCRNATools} | R Documentation |
Download clinical data in GDC either by providing the manifest file or specifying the project id and data type
gdcClinicalDownload(manifest = NULL, project.id, directory = "Clinical", write.manifest = FALSE, method = "GenomicDataCommons")
manifest |
menifest file that is downloaded from the GDC cart.
If provided, files whose UUIDs are in the manifest file will be
downloaded via gdc-client, otherwise, |
project.id |
project id in GDC |
directory |
the folder to save downloaded files.
Default is |
write.manifest |
logical, whether to write out the manifest file |
method |
method that is used to download data. Either
|
downloaded files in the specified directory
Ruidong Li and Han Qu
####### Download Clinical data by manifest file ####### manifest <- 'Clinical.manifest.txt' ## Not run: gdcClinicalDownload(manifest = manifest, directory = 'Clinical') ## End(Not run) ####### Download Clinical data by project id ####### project <- 'TCGA-PRAD' ## Not run: gdcClinicalDownload(project.id = project, write.manifest = TRUE, directory = 'Clinical') ## End(Not run)