## ---- setup, include=FALSE---------------------------------------------------- knitr::opts_chunk$set(cache = TRUE) ## ----include=TRUE,results="hide",message=FALSE,warning=FALSE------------------ library(cBioPortalData) library(AnVIL) ## ----message=FALSE,warning=FALSE---------------------------------------------- ## Use ask=FALSE for non-interactive use cBioDataPack("laml_tcga", ask = FALSE) ## ----warning=FALSE------------------------------------------------------------ cbio <- cBioPortal() acc <- cBioPortalData(api = cbio, by = "hugoGeneSymbol", studyId = "acc_tcga", genePanelId = "IMPACT341", molecularProfileIds = c("acc_tcga_rppa", "acc_tcga_linear_CNA") ) acc ## ----eval=FALSE--------------------------------------------------------------- # removeCache("laml_tcga") ## ----eval=FALSE--------------------------------------------------------------- # unlink("~/.cache/cBioPortalData/") ## ----------------------------------------------------------------------------- sessionInfo()