From 5c9c2df2e59710d1c533e1192a39cd9c42fff981 Mon Sep 17 00:00:00 2001 From: HelenaLC Date: Thu, 7 Mar 2019 14:44:43 +0100 Subject: [PATCH] update dox --- DESCRIPTION | 6 +----- 1 file changed, 1 insertion(+), 5 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index 12a391f6..99d9c5ee 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -11,11 +11,7 @@ Authors@R: c( person("Bernd", "Bodenmiller", role="fnd")) biocViews: DifferentialExpression, FlowCytometry, ImmunoOncology, MassSpectrometry, Normalization, Preprocessing, SingleCell, Software, StatisticalMethod, Visualization Description: Mass cytometry (CyTOF) uses heavy metal isotopes rather than fluorescent tags as reporters to label antibodies, thereby substantially decreasing spectral overlap and allowing for examination of over 50 parameters at the single cell level. While spectral overlap is significantly less pronounced in CyTOF than flow cytometry, spillover due to detection sensitivity, isotopic impurities, and oxide formation can impede data interpretability. We designed CATALYST (Cytometry dATa anALYSis Tools) to provide a pipeline for preprocessing of cytometry data, including i) normalization using bead standards, ii) single-cell deconvolution, and iii) bead-based compensation. -Imports: Biobase, circlize, ComplexHeatmap, ConsensusClusterPlus, data.table, dplyr, drc, DT, - flowCore, FlowSOM, ggplot2, ggrepel, ggridges, graphics, grDevices, grid, - gridExtra, htmltools, limma, magrittr, Matrix, matrixStats, methods, nnls, - plotly, purrr, RColorBrewer, reshape2, Rtsne, S4Vectors, scales, shiny, shinydashboard, - shinyBS, shinyjs, stats, SummarizedExperiment, tidyr, utils +Imports: Biobase, circlize, ComplexHeatmap, ConsensusClusterPlus, data.table, dplyr, drc, DT, flowCore, FlowSOM, ggplot2, ggrepel, ggridges, graphics, grDevices, grid, gridExtra, htmltools, limma, magrittr, matrixStats, methods, nnls, plotly, purrr, RColorBrewer, reshape2, Rtsne, S4Vectors, scales, scater, shiny, shinydashboard, shinyBS, shinyjs, SingleCellExperiment, stats, SummarizedExperiment, utils Suggests: BiocStyle, knitr, rmarkdown, testthat, diffcyt URL: https://github.com/HelenaLC/CATALYST BugReports: https://github.com/HelenaLC/CATALYST/issues