diff --git a/R/listSims.R b/R/listSims.R index 2fc06d168bdd2552b2e0dbead7e40e633be7187e..4dadb145a5c1b40d69849adaf4544322f50e9abb 100644 --- a/R/listSims.R +++ b/R/listSims.R @@ -40,7 +40,7 @@ listSims <- function(print = TRUE) { "Gamma distributed means and negative binomial counts. Cells are given a size factor and differential expression can be simulated with fixed fold changes."), - c("Lun 2", "lun2", "10.1101/073973", + c("Lun 2", "lun2", "10.1093/biostatistics/kxw055", "MarioniLab/PlateEffects2016", "Negative binomial counts where the means and dispersions have been sampled from a real dataset. The core feature of diff --git a/R/lun2-simulate.R b/R/lun2-simulate.R index 35329de75e4dd9f9fff1fb643c349e475c8997b4..c839eed6e1b6f53ff83d6e828d87c67ed5f0b822 100644 --- a/R/lun2-simulate.R +++ b/R/lun2-simulate.R @@ -30,9 +30,9 @@ #' #' @references #' Lun ATL, Marioni JC. Overcoming confounding plate effects in differential -#' expression analyses of single-cell RNA-seq data. bioRxiv (2016). +#' expression analyses of single-cell RNA-seq data. Biostatistics (2017). #' -#' Paper: \url{dx.doi.org/10.1101/073973} +#' Paper: \url{dx.doi.org/10.1093/biostatistics/kxw055} #' #' Code: \url{https://github.com/MarioniLab/PlateEffects2016} #' diff --git a/man/lun2Simulate.Rd b/man/lun2Simulate.Rd index e091ce9d8c739de001334b4f9b8a0f6b2d3975c4..4b6c66dfc317aed96b34d707b7b593f93a7e317c 100644 --- a/man/lun2Simulate.Rd +++ b/man/lun2Simulate.Rd @@ -45,9 +45,9 @@ sim <- lun2Simulate() } \references{ Lun ATL, Marioni JC. Overcoming confounding plate effects in differential -expression analyses of single-cell RNA-seq data. bioRxiv (2016). +expression analyses of single-cell RNA-seq data. Biostatistics (2017). -Paper: \url{dx.doi.org/10.1101/073973} +Paper: \url{dx.doi.org/10.1093/biostatistics/kxw055} Code: \url{https://github.com/MarioniLab/PlateEffects2016} }