inst/script/example_data.R

In campbio/musicatk: Mutational Signature Comprehensive Analysis Toolkit

#' Trimmed lung adenocarcinoma vcf from TCGA
#'
#' @name raw_public_LUAD_TCGA-97-7938
#'
#' @section public_LUAD_TCGA-97-7938.vcf
#'
#' This data is used in the vignette and in several examples
NULL

#' Trimmed melanoma vcf from TCGA
#'
#' @name raw_public_SKCM_TCGA-EE-A3J5-06A-11D-A20D-08
#'
#' @section public_SKCM_TCGA-EE-A3J5-06A-11D-A20D-08.vcf
#'
#' This data is used in the vignette
NULL

#' Trimmed melanoma vcf from TCGA
#'
#' @name raw_public_SKCM_TCGA-ER-A19O-06A-11D-A197-08
#'
#' @section public_SKCM_TCGA-ER-A19O-06A-11D-A197-08.vcf
#'
#' This data is used in the vignette
NULL

#' Trimmed melanoma vcf from TCGA
#'
#' @name raw_public_SKCM_TCGA-ER-A197-06A-32D-A197-08
#'
#' @section public_SKCM_TCGA-ER-A197-06A-32D-A197-08.vcf
#'
#' This data is used in the vignette
NULL

#' Larger lung squamous maf from TCGA
#'
#' @name raw_public_TCGA.LUSC
#'
#' @section public_TCGA.LUSC.maf
#'
#' This data is used in the vignette and in several examples
NULL

#' Example sample annotations that maps sample names to tumor subtypes
#'
#' @name raw_sample_annotations
#'
#' @section sample_annotations.txt
#'
#' This data is used in the vignette and in several examples
NULL

#' Example count table with LUAD data from TCGA
#'
#' @name luad_tcga_count_table
#'
#' @section luad_tcga_count_table.csv
#'
#' This data is used in the vignette
NULL