SCR TCGA Crawler
The following code crawls the TCGA repository and returns a character matrix containing the various annotations and properties needed to contribute the datasets to Synapse. It then contributes any new data entities to Synapse.
library(rSCR); # To crawl public site tcga <- crawlTcga() # To crawl private site tcgaPrivate <- crawlTcga(user=tcgaUser,pwd=tcgaPwd,private=TRUE) # contribute the new entities to Synapse newEntities <- updateScrWithTcgaCrawlerOutput(tcga, private=FALSE, update=TRUE) # contribute the new entities to Synapse newEntities <- updateScrWithTcgaCrawlerOutput(tcga, private=FALSE, update=TRUE)
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