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Type: Package
Title: Profiling of Peripheral Blood Mononuclear Cells using CyTOF
Version: 0.1.1
Depends: R (≥ 3.1.0)
Suggests: ggplot2, cytofan, dplyr, reshape2, RColorBrewer, knitr, rmarkdown
Description: This data package contains a subset of the Bodenmiller et al, Nat Biotech 2012 dataset for testing single cell, high dimensional analysis and visualization methods.
License: CC0
Encoding: UTF-8
LazyData: TRUE
LazyDataCompression: xz
URL: https://github.com/yannabraham/bodenmiller
BugReports: https://github.com/yannabraham/bodenmiller/issues
VignetteBuilder: knitr
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2021-04-11 14:20:25 UTC; ayann
Author: Yann Abraham [aut, cre], Bernd Bodenmiller [aut]
Maintainer: Yann Abraham <yann.abraham@gmail.com>
Repository: CRAN
Date/Publication: 2021-04-11 15:20:06 UTC

Reference Annotation

Description

A data.frame containing the source file and cell type for every cell in refPhenoMat and refFuncMat. See Bodenmiller et al 2012 for details.

Usage

refAnnots

Format

a data.frame with 15792 rows and 2 variables:

Source

https://reports.cytobank.org/105/v2/


Reference Matrix (Functional)

Description

a matrix containing the signal intensity for functional markers measured using CyTOF on different cell types. See Bodenmiller et al 2012 for details.

Usage

refFuncMat

Format

a matrix with 15792 rows and 14 variables:

Source

https://reports.cytobank.org/105/v2/


Reference Matrix (Phenotypic)

Description

a matrix containing the signal intensity for phenotypic markers measured using CyTOF on different cell types. See Bodenmiller et al 2012 for details.

Usage

refPhenoMat

Format

a matrix with 15792 rows and 9 variables:

Source

https://reports.cytobank.org/105/v2/


Untreated Samples with 4 Different Treatments (Annotation)

Description

A data.frame containing the source file, cell type and stimulation for every cell in refPhenoMat and refFuncMat. Stimulations include BCR/FcR-XL, PMA/Ionomycin and vanadate.See Bodenmiller et al 2012 for details.

Usage

untreatedAnnots

Format

a data.frame with 15792 rows and 2 variables:

Source

https://reports.cytobank.org/105/v2/


Untreated Samples with 4 Different Treatments (Functional)

Description

a matrix containing the signal intensity for functional markers measured using CyTOF on different cell types, after stimulation with BCR/FcR-XL, PMA/Ionomycin and vanadate. See Bodenmiller et al 2012 for details.

Usage

untreatedFuncMat

Format

a matrix with 15792 rows and 14 variables:

Source

https://reports.cytobank.org/105/v2/


Untreated Samples with 4 Different Treatments (Phenotypic)

Description

a matrix containing the signal intensity for phenotypic markers measured using CyTOF on different cell types, after stimulation with BCR/FcR-XL, PMA/Ionomycin and vanadate. See Bodenmiller et al 2012 for details.

Usage

untreatedPhenoMat

Format

a matrix with 15792 rows and 9 variables:

Source

https://reports.cytobank.org/105/v2/

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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