Package: clusterExperiment
Title: Compare Clusterings for Single-Cell Sequencing
Version: 2.6.1
Description: Provides functionality for running and comparing many
    different clusterings of single-cell sequencing data or other large mRNA Expression data sets.
Authors@R: c(person("Elizabeth", "Purdom", email = "epurdom@stat.berkeley.edu",
            role = c("aut", "cre", "cph")),
	     person("Davide","Risso", role = "aut",email = "risso.davide@gmail.com"))
Author: Elizabeth Purdom [aut, cre, cph], Davide Risso [aut]
Maintainer: Elizabeth Purdom <epurdom@stat.berkeley.edu>
BugReports: https://github.com/epurdom/clusterExperiment/issues
License: Artistic-2.0
Depends: R (>= 3.5.0), SingleCellExperiment, SummarizedExperiment,
        BiocGenerics
Imports: methods, NMF, RColorBrewer, ape (>= 5.0), cluster, stats,
        limma, howmany, locfdr, matrixStats, graphics, parallel,
        RSpectra, kernlab, stringr, S4Vectors, grDevices, DelayedArray
        (>= 0.7.48), HDF5Array (>= 1.7.10), Matrix, Rcpp, edgeR,
        scales, zinbwave, phylobase, pracma
Suggests: BiocStyle, knitr, testthat, scRNAseq, MAST, Rtsne, scran,
        igraph
VignetteBuilder: knitr
LazyData: false
LazyLoad: false
RoxygenNote: 6.1.1
biocViews: Clustering, RNASeq, Sequencing, Software, SingleCell
Collate: 'AllChecks.R' 'AllClassesCE.R' 'AllClassesCF.R'
        'AllGenerics.R' 'AllHelper.R' 'AllHelperClusterFunction.R'
        'AllHelperDendro.R' 'AllHelperFilter.R' 'JiashinJiCode.R'
        'RcppExports.R' 'addClusterings.R' 'assignUnassigned.R'
        'internalDendroFunctions.R' 'internalClusterFunctions.R'
        'internalFunctions.R' 'builtInClusterFunctions.R'
        'clusterContrasts.R' 'clusterMany.R' 'clusterSingle.R'
        'dataCreation.R' 'deprecateFunctions.R' 'getClusterIndex.R'
        'getFeatures.R' 'getParams.R' 'getReducedData.R'
        'mainClustering.R' 'makeBlankData.R' 'makeConsensus.R'
        'makeDendrogram.R' 'makeFilterStats.R' 'makeReducedDims.R'
        'mergeClusters.R' 'plotBarplot.R' 'plotClusters.R'
        'plotClustersTable.R' 'plotClustersWorkflow.R'
        'plotContrastHeatmap.R' 'plotDendrogram.R'
        'plotFeatureBoxplot.R' 'plotFeatureScatter.R' 'plotHeatmap.R'
        'plotReduceDim.R' 'plottingHelpers.R' 'rsec.R' 'seqCluster.R'
        'subsampleClustering.R' 'subsampleLoop.R' 'subset.R'
        'transformFunction.R' 'updateObject.R' 'workflowClusters.R'
LinkingTo: Rcpp
git_url: https://git.bioconductor.org/packages/clusterExperiment
git_branch: RELEASE_3_10
git_last_commit: 96e2103
git_last_commit_date: 2019-11-05
Date/Publication: 2019-11-06
NeedsCompilation: yes
Packaged: 2019-11-07 03:14:09 UTC; biocbuild
Built: R 3.6.1; x86_64-apple-darwin15.6.0; 2019-11-07 12:28:16 UTC; unix
