R/data.R

In tinglab/redPATH: Reconstructing the pseudo development time of cell lineages in single cell RNA-Seq data and applications in cancer.

#' MGH107 - single cell glioma dataset of MGH107 patient. 
#'
#' A dataset of 252 cells.
#'  Referenced from:
#'  Venteicher, A.S., Tirosh, I., Hebert, C., Yizhak, K., Neftel, C., Filbin, M.G., Hovestadt, V., Escalante, L.E., Shaw, M.L., Rodman, C. et al. (2017) 
#'  Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq. Science, 355
#'
#' @format A data frame with 23686 rows (genes) and 252 cells
"mgh107_portal_exprs"

#' MGH107 - single cell glioma dataset of MGH107 patient. 
#'
#' A dataset of 252 cells.
#'  Referenced from:
#'  Venteicher, A.S., Tirosh, I., Hebert, C., Yizhak, K., Neftel, C., Filbin, M.G., Hovestadt, V., Escalante, L.E., Shaw, M.L., Rodman, C. et al. (2017) 
#'  Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq. Science, 355
#'
#' @format A vector of 252 cell type labels
"mgh107_portal_labels"

#' Llorens-B - single cell neural stem cells dataset. 
#'
#' A dataset of 145 cells. 
#'  Referenced from:
#'  Llorens-Bobadilla, E., Zhao, S., Baser, A., Saiz-Castro, G., Zwadlo, K. and Martin-Villalba, A. (2015) 
#'  Single-Cell Transcriptomics Reveals a Population of Dormant Neural Stem Cells that Become Activated upon Brain Injury. Cell Stem Cell, 17, 329-340.
#'  
#' @format A data frame with 8105 rows (genes) and 145 cells

"llorens_exprs"

#' Llorens-B - single cell neural stem cells dataset. 
#'
#' A dataset of 145 cells. 
#'  Referenced from:
#'  Llorens-Bobadilla, E., Zhao, S., Baser, A., Saiz-Castro, G., Zwadlo, K. and Martin-Villalba, A. (2015) 
#'  Single-Cell Transcriptomics Reveals a Population of Dormant Neural Stem Cells that Become Activated upon Brain Injury. Cell Stem Cell, 17, 329-340.
#'  
#' @format A vector of 145 cell type labels

"llorens_labels"