Download and Explore Datasets from UCSC Xena Data Hubs

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Documentation for package ‘UCSCXenaTools’ version 1.4.8

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.XenaHub	Class XenaHub
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
fetch	Fetch Data from UCSC Xena Hosts
fetch_dataset_identifiers	Fetch Data from UCSC Xena Hosts
fetch_dataset_samples	Fetch Data from UCSC Xena Hosts
fetch_dense_values	Fetch Data from UCSC Xena Hosts
fetch_sparse_values	Fetch Data from UCSC Xena Hosts
getTCGAdata	Get TCGA Common Data Sets by Project ID and Property
has_probeMap	Fetch Data from UCSC Xena Hosts
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 Info of Dataset or Cohort at UCSC Xena Website 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	Class XenaHub
XenaPrepare	Prepare (Load) Downloaded Datasets to R
XenaQuery	Query URL of Datasets before Downloading
XenaQueryProbeMap	Query ProbeMap URL of Datasets
XenaScan	Scan all rows according to user input by a regular expression
XenaShiny	Xena Shiny App
xena_default_hosts	UCSC Xena Default Hosts