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HDCytoData

Collection of high-dimensional cytometry benchmark datasets in Bioconductor object formats

Bioconductor version: 3.23 · Package version: 1.32.1

Data package containing a set of publicly available high-dimensional cytometry benchmark datasets, formatted into SummarizedExperiment and flowSet Bioconductor object formats, including all required metadata. Row metadata includes sample IDs, group IDs, patient IDs, reference cell population or cluster labels (where available), and labels identifying 'spiked in' cells (where available). Column metadata includes channel names, protein marker names, and protein marker classes (cell type or cell state).

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("HDCytoData")

Details

MaintainerLukas M. Weber <weberlm3@gmail.com>
AuthorLukas M. Weber [aut, cre], Charlotte Soneson [aut]
LicenseMIT + file LICENSE
URLhttps://github.com/lmweber/HDCytoData
Bug Reportshttps://github.com/lmweber/HDCytoData/issues
Downloads rank323
Source branchRELEASE_3_23
biocViewsExperimentData, ExperimentHub, ExpressionData, FlowCytometryData, Homo_sapiens_Data, ImmunoOncologyData, SingleCellData

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Dependencies

Depends: ExperimentHub, SummarizedExperiment, flowCore

Imports: utils, methods

Suggests: BiocStyle, knitr, rmarkdown, Rtsne, umap, ggplot2, FlowSOM, mclust

Reverse dependencies

Depends On Me (1): cytofWorkflow

Suggests Me (5): CytoMDS, diffcyt, MDSvis, tidyFlowCore, tidytof