R/data.R

In SinomeM/QCtreeCNV: Reducing the visual inspection effort in CNV calling

#' Start and end of all chromosome arms in the assembly hg18
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{arm_ID}{name of the arm, chromosome name and p/q}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   ...
#' }
"hg18_chr_arms"


#' Start and end of all chromosome arms in the assembly hg19
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{arm_ID}{name of the arm, chromosome name and p/q}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   ...
#' }
"hg19_chr_arms"

#' Start and end of all chromosome arms in the assembly hg38
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{arm_ID}{name of the arm, chromosome name and p/q}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   ...
#' }
"hg38_chr_arms"


#' Start, end and centromere position of all chromosomes in the assembly hg38
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   \item{centromere}{centromere position}
#'   ...
#' }
"hg38_start_end_centromeres"

#' Start, end and centromere position of all chromosomes in the assembly hg18
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   \item{centromere}{centromere position}
#'   ...
#' }
"hg18_start_end_centromeres"

#' Start, end and centromere position of all chromosomes in the assembly hg19
#'
#' @format A data frame with 53940 rows and 10 variables:
#' \describe{
#'   \item{chr}{chromosome, 1:24}
#'   \item{start}{first base pair position, 0 indexed}
#'   \item{end}{last position}
#'   \item{centromere}{centromere position}
#'   ...
#' }
"hg19_start_end_centromeres"