TCGAretriever (version 1.5)

get_case_lists: Retrieve All Case List Available for a Specific TCGA Study

Description

TCGA keeps track of which samples were analyzed by which technique within a given Study. Sample identifiers are organized in lists of cases (samples/patients) and are associated with a case_list identifier. The function retrieves information about the case lists available for a given TCGA Study.

Usage

get_case_lists(csid = NULL)

Value

Data Frame including one row per case_list and five columns

Arguments

csid

String corresponding to the Identifier of the TCGA Study of Interest

Author

Damiano Fantini,

References

• http://www.biotechworld.it/bioinf/2016/07/11/tcga-data-via-tcgaretriever/

• https://www.data-pulse.com/dev_site/TCGAretriever/

Examples

all_case_lists <- get_case_lists("blca_tcga")
if(ncol(all_case_lists) >= 3) {
  all_case_lists[,1:3]
}