R/data.R

In axm323/dataVisEasy: datavisEasy: Data visualizations Using Annotations Made Easy

#' Normalized HT-qPCR data for single neurons from the Right Atrial Ganglionated Plexus of a Yucatan Minipig
#'
#' HT-qPCR data for 174 genes for 405 single neurons across 4 Pigs. These are the genes that passed QC
#' for all 4 animals. See \link[dataVisEasy]{RAGP_rawCt} for the raw Ct values and \link[dataVisEasy]{RAGP_annots}
#' for annotations for all samples. This data is used in examples for functions in the dataVisEasy package.
#'
#' @docType data
#' @format A matrix with 174 rows (genes) and 405 columns (samples):
#' @source Data can be found at GEO reference ID: GSE149212 and on sparc.science portal at DOI: 10.26275/5jki-b4er
"RAGP_norm"


#' Raw Ct HT-qPCR data for single neurons from the Right Atrial Ganglionated Plexus of a Yucatan Minipig
#'
#' HT-qPCR data for 241 genes for 405 single neurons across 4 Pigs. These genes passed QC
#' in at least one of the four animals. See \link[dataVisEasy]{RAGP_norm} for the normalized and trimmed data and \link[dataVisEasy]{RAGP_annots}
#' for annotations for all samples. This data is used in examples for functions in the dataVisEasy package.
#'
#' @docType data
#' @format A matrix with 241 rows (genes) and 405 columns (samples):
#' @source Data can be found at GEO reference ID: GSE149212 and on sparc.science portal at DOI: 10.26275/5jki-b4er
"RAGP_rawCt"


#' Annotations for single neurons from the Right Atrial Ganglionated Plexus of a Yucatan Minipig
#'
#' Annotations for 405 single neurons across 4 Pigs that were assayed for expression of 266 genes through HT-qPCR.
#' See \link[dataVisEasy]{RAGP_rawCt} for the raw Ct values and \link[dataVisEasy]{RAGP_norm} for the normalized and trimmed data.
#' This data is used in examples for functions in the dataVisEasy package.
#'
#' @docType data
#' @format A data frame with 405 rows (samples) and 8 variables:
#' \describe{
#'   \item{Sample_ID}{Sample name for 405 single neurons}
#'   \item{Section}{Section number from which the sample was taken}
#'   \item{Cap_ID}{Cap_ID indicating which sample from the given section}
#'   \item{Connectivity}{Whether the single neuron (sample) in question is projecting to the SA-Node (based on FastBlue tracer)}
#'   \item{Animal}{Animal specimen from which the sample originated}
#'   \item{State}{Identified transcriptional state (see Moss et al. in Review)}
#'   \item{Sub_State}{Identified transcriptional states, some of which have further substates}
#'   \item{Sex}{Sex of the animal from which the sample originated}
#' }
#' @source Data can be found at GEO reference ID: GSE149212 and on sparc.science portal at DOI: 10.26275/5jki-b4er
"RAGP_annots"