Download and Explore Datasets from UCSC Xena Data Hubs


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Documentation for package ‘UCSCXenaTools’ version 1.2.0

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.XenaHub @title a S4 class to represent UCSC Xena Data Hubs @slot hosts hosts of data hubs @slot cohorts cohorts of data hubs @slot datasets datasets of data hubs @importFrom methods new
availTCGA Get or Check TCGA Available ProjectID, DataType and FileType
cohorts Get cohorts of XenaHub object
datasets Get datasets of XenaHub object
downloadTCGA Easily Download TCGA Data by Several Options
getTCGAdata Get TCGA Common Data Sets by Project ID and Property
hosts Get hosts of XenaHub object
samples Get Samples of a XenaHub object according to 'by' and 'how' action arguments
showTCGA Show TCGA data structure by Project ID or ALL
to_snake Convert camel case to snake case
XenaBrowse View One Dataset or Cohort Using Web browser
XenaData Xena Hub Information
XenaDataUpdate Get or Update Newest Data Information of UCSC Xena Data Hubs
XenaDownload Download Datasets from UCSC Xena Hubs
XenaFilter Filter a XenaHub Object
XenaGenerate Generate and Subset a XenaHub Object from 'XenaData'
XenaHub Generate a XenaHub Object
XenaHub-class @title a S4 class to represent UCSC Xena Data Hubs @slot hosts hosts of data hubs @slot cohorts cohorts of data hubs @slot datasets datasets of data hubs @importFrom methods new
XenaPrepare Prepare (Load) Downloaded Datasets to R
XenaQuery Query URL of Datasets before Downloading
XenaShiny Xena Shiny App
xena_default_hosts UCSC Xena Default Hosts