Browse code

RGLab/flowWorkspace#283

mikejiang authored on 03/04/2019 02:26:10
Showing 4 changed files

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@@ -31,7 +31,8 @@ Imports:
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     grDevices,
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     methods,
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     ggcyto (>= 1.11.4),
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-    yaml
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+    yaml,
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+    lattice
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 biocViews: ImmunoOncology, FlowCytometry, DataImport, DataRepresentation
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 LinkingTo: Rcpp, BH(>= 1.62.0-1), RProtoBufLib(>= 1.3.7), cytolib(>= 1.3.3), RcppParallel
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 Suggests:
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@@ -93,6 +93,7 @@ print.cytobankExperiment <- function(x, ...){
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 #' @rdname cytobankExperiment
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 #' @method getCompensationMatrices cytobankExperiment
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 #' @export
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+#' @aliases getCompensationMatrices
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 #' @export getCompensationMatrices
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 getCompensationMatrices.cytobankExperiment <- function(x){
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   comps <- x[["experiment"]][["compensations"]]
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@@ -152,6 +153,7 @@ get_panel_per_file <- function(ce){
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 #' @export
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 #' @method getTransformations cytobankExperiment
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 #' @export getTransformations
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+#' @aliases getTransformations
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 getTransformations.cytobankExperiment <- function(x, ...){
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   chnls <- colnames(x)
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   low.chnls <- tolower(chnls)
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@@ -4,8 +4,7 @@
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 \alias{compare.counts}
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 \title{compare the counts to cytobank's exported csv so that the parsing result can be verified.}
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 \usage{
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-\method{compare}{counts}(gs, file, id.vars = c("FCS Filename",
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-  "population"), ...)
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+compare.counts(gs, file, id.vars = c("FCS Filename", "population"), ...)
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 }
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 \arguments{
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 \item{gs}{parsed GatingSet}
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@@ -5,9 +5,11 @@
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 \alias{cytobankExperiment}
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 \alias{print.cytobankExperiment}
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 \alias{getCompensationMatrices.cytobankExperiment}
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+\alias{getCompensationMatrices}
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 \alias{markernames,cytobankExperiment-method}
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 \alias{colnames,cytobankExperiment-method}
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 \alias{getTransformations.cytobankExperiment}
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+\alias{getTransformations}
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 \alias{sampleNames,cytobankExperiment-method}
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 \alias{pData,cytobankExperiment-method}
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 \title{Construct cytobankExperiment object from ACS file}