@@ -31,7 +31,8 @@ Imports:

     grDevices,

     methods,

     ggcyto (>= 1.11.4),

-    yaml

+    yaml,

+    lattice

 biocViews: ImmunoOncology, FlowCytometry, DataImport, DataRepresentation

 LinkingTo: Rcpp, BH(>= 1.62.0-1), RProtoBufLib(>= 1.3.7), cytolib(>= 1.3.3), RcppParallel

 Suggests:

@@ -93,6 +93,7 @@ print.cytobankExperiment <- function(x, ...){

 #' @rdname cytobankExperiment

 #' @method getCompensationMatrices cytobankExperiment

 #' @export

+#' @aliases getCompensationMatrices

 #' @export getCompensationMatrices

 getCompensationMatrices.cytobankExperiment <- function(x){

   comps <- x[["experiment"]][["compensations"]]

@@ -152,6 +153,7 @@ get_panel_per_file <- function(ce){

 #' @export

 #' @method getTransformations cytobankExperiment

 #' @export getTransformations

+#' @aliases getTransformations

 getTransformations.cytobankExperiment <- function(x, ...){

   chnls <- colnames(x)

   low.chnls <- tolower(chnls)

@@ -4,8 +4,7 @@

 \alias{compare.counts}

 \title{compare the counts to cytobank's exported csv so that the parsing result can be verified.}

 \usage{

-\method{compare}{counts}(gs, file, id.vars = c("FCS Filename",

-  "population"), ...)

+compare.counts(gs, file, id.vars = c("FCS Filename", "population"), ...)

 }

 \arguments{

 \item{gs}{parsed GatingSet}

@@ -5,9 +5,11 @@

 \alias{cytobankExperiment}

 \alias{print.cytobankExperiment}

 \alias{getCompensationMatrices.cytobankExperiment}

+\alias{getCompensationMatrices}

 \alias{markernames,cytobankExperiment-method}

 \alias{colnames,cytobankExperiment-method}

 \alias{getTransformations.cytobankExperiment}

+\alias{getTransformations}

 \alias{sampleNames,cytobankExperiment-method}

 \alias{pData,cytobankExperiment-method}

 \title{Construct cytobankExperiment object from ACS file}