Package 'optimalFlowData' reference manual

Title:	optimalFlowData
Description:	Data files used as examples and for testing of the software provided in the optimalFlow package.
Authors:	Hristo Inouzhe <[email protected]>
Maintainer:	Hristo Inouzhe <[email protected]>
License:	Artistic-2.0
Version:	1.24.0
Built:	2026-10-10 11:16:26 UTC
Source:	https://github.com/bioc/optimalFlowData

buildDatabase

Description

Constructs a subset of the cell types and cytometries in optimalFlowData in order to be used as a database.

Usage

buildDatabase(dataset_names, population_ids)
buildDatabase(dataset_names, population_ids)

Arguments

dataset_names

A vector of strings with the names of the cytometries, ranging in c("Cytometry1",...,"Cytometry40").

population_ids

A vector of strings with the names of the cell types to be selected in each cytometry.

Value

A list where each element is a cytometry containing only the cell types given by population_ids.

Examples

database <- buildDatabase(
  dataset_names = paste0('Cytometry', c(2:5, 7:9, 12:17, 19, 21)),
  population_ids = c('Monocytes', 'CD4+CD8-', 'Mature SIg Kappa', 'TCRgd-'))

database <- buildDatabase(
  dataset_names = paste0('Cytometry', c(2:5, 7:9, 12:17, 19, 21)),
  population_ids = c('Monocytes', 'CD4+CD8-', 'Mature SIg Kappa', 'TCRgd-'))

A list of abreviations corresponding to the diagnosis for each cytometry in optimalFlowData. Diagnosis abbreviations correspond to: Healthy Diagnosis, Mantle Cell Lymphoma, Follicular Lymphoma, LymPhoplasmacytic Lymphoma, Chronic Lymphocytic Leukemia, Diffuse Large B-Cell Lymphoma and Hairy Cell Leukemia.

Usage

data("cytometry_diagnosis")data("cytometry_diagnosis")

Format

A list of 40 diagnosis.

Examples

data(cytometry.diagnosis)
print(cytometry.diagnosis)
data(cytometry.diagnosis)
print(cytometry.diagnosis)

Cytometry1

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry1")data("Cytometry1")

Format

A data frame with 82810 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vecto.r
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): an vector of cell types (strings).

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry1)
head(Cytometry1)
data(Cytometry1)
head(Cytometry1)

Cytometry10

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry10")data("Cytometry10")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vecctor.
CD38:APC H7-A LOGICAL: an integer vecctor.
CD3:APC-A LOGICAL: an integer vecctor.
CD4+CD20:PB-A LOGICAL: an integer vecctor.
CD45:PO-A LOGICAL: an integer vecctor.
CD56+IgK:PE-A LOGICAL: an integer vecctor.
CD5:PerCP Cy5-5-A LOGICAL: an integer vecctor.
CD8+IgL:FITC-A LOGICAL: an integer vecctor.
FSC-A LINEAR: an integer vecctor.
SSC-A Exp-SSC Low: an integer vecctor.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry10)
head(Cytometry10)
data(Cytometry10)
head(Cytometry10)

Cytometry11

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry11")data("Cytometry11")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry11)
head(Cytometry11)
data(Cytometry11)
head(Cytometry11)

Cytometry12

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry12")data("Cytometry12")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry12)
head(Cytometry12)
data(Cytometry12)
head(Cytometry12)

Cytometry13

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry13")data("Cytometry13")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry13)
head(Cytometry13)
data(Cytometry13)
head(Cytometry13)

Cytometry14

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry14")data("Cytometry14")

Format

A data frame with 154882 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry14)
head(Cytometry14)
data(Cytometry14)
head(Cytometry14)

Cytometry15

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry15")data("Cytometry15")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry15)
head(Cytometry15)
data(Cytometry15)
head(Cytometry15)

Cytometry16

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry16")data("Cytometry16")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry16)
head(Cytometry16)
data(Cytometry16)
head(Cytometry16)

Cytometry17

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry17")data("Cytometry17")

Format

A data frame with 252425 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry17)
head(Cytometry17)
data(Cytometry17)
head(Cytometry17)

Cytometry18

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry18")data("Cytometry18")

Format

A data frame with 200675 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry18)
head(Cytometry18)
data(Cytometry18)
head(Cytometry18)

Cytometry19

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry19")data("Cytometry19")

Format

A data frame with 100600 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry19)
head(Cytometry19)
data(Cytometry19)
head(Cytometry19)

Cytometry2

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual bsed on data taken following Euroflow protocols.

Usage

data("Cytometry2")data("Cytometry2")

Format

A data frame with 140753 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vactor.
CD38:APC H7-A LOGICAL: an integer vactor.
CD3:APC-A LOGICAL: an integer vactor.
CD4+CD20:PB-A LOGICAL: an integer vactor.
CD45:PO-A LOGICAL: an integer vactor.
CD56+IgK:PE-A LOGICAL: an integer vactor.
CD5:PerCP Cy5-5-A LOGICAL: an integer vactor.
CD8+IgL:FITC-A LOGICAL: an integer vactor.
FSC-A LINEAR: an integer vactor.
SSC-A Exp-SSC Low: an integer vactor.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry2)
head(Cytometry2)
data(Cytometry2)
head(Cytometry2)

Cytometry20

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry20")data("Cytometry20")

Format

A data frame with 200925 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry20)
head(Cytometry20)
data(Cytometry20)
head(Cytometry20)

Cytometry21

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry21")data("Cytometry21")

Format

A data frame with 254450 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry21)
head(Cytometry21)
data(Cytometry21)
head(Cytometry21)

Cytometry22

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a Mantle Cell Lymphoma based on data taken following Euroflow protocols.

Usage

data("Cytometry22")data("Cytometry22")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry22)
head(Cytometry22)
data(Cytometry22)
head(Cytometry22)

Cytometry23

Description

A flow cytometry dataset, as a data frame, of an individual wit a Mantle Cell Lymphoma taken following Euroflow protocols.

Usage

data("Cytometry23")data("Cytometry23")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry23)
head(Cytometry23)
data(Cytometry23)
head(Cytometry23)

Cytometry24

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a Follicular Lymphoma based on data taken following Euroflow protocols.

Usage

data("Cytometry24")data("Cytometry24")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry24)
head(Cytometry24)
data(Cytometry24)
head(Cytometry24)

Cytometry25

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a Mantle Cell Lymphoma based on data taken following Euroflow protocols.

Usage

data("Cytometry25")data("Cytometry25")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry25)
head(Cytometry25)
data(Cytometry25)
head(Cytometry25)

Cytometry26

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a LymPhoplasmacytic Lymphoma based on data taken following Euroflow protocols.

Usage

data("Cytometry26")data("Cytometry26")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry26)
head(Cytometry26)
data(Cytometry26)
head(Cytometry26)

Cytometry27

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a Chronic Lymphocytic Leukemia based on data taken following Euroflow protocols.

Usage

data("Cytometry27")data("Cytometry27")

Format

A data frame with 300000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry27)
head(Cytometry27)
data(Cytometry27)
head(Cytometry27)

Cytometry28

Description

A simulated flow cytometry dataset, as a data frame, of an individual wit a Chronic Lymphocytic Leukemia based on data taken following Euroflow protocols.

Usage

data("Cytometry28")data("Cytometry28")

Format

A data frame with 300000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry28)
head(Cytometry28)
data(Cytometry28)
head(Cytometry28)

Cytometry29

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual bsed on data taken following Euroflow protocols.

Usage

data("Cytometry29")data("Cytometry29")

Format

A data frame with 300000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry29)
head(Cytometry29)
data(Cytometry29)
head(Cytometry29)

Cytometry3

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry3")data("Cytometry3")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry3)
head(Cytometry3)
data(Cytometry3)
head(Cytometry3)

Cytometry30

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry30")data("Cytometry30")

Format

A data frame with 236886 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry30)
head(Cytometry30)
data(Cytometry30)
head(Cytometry30)

Cytometry31

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry31")data("Cytometry31")

Format

A data frame with 229216 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry31)
head(Cytometry31)
data(Cytometry31)
head(Cytometry31)

Cytometry32

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry32")data("Cytometry32")

Format

A data frame with 260598 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry32)
head(Cytometry32)
data(Cytometry32)
head(Cytometry32)

Cytometry33

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry33")data("Cytometry33")

Format

A data frame with 135798 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry33)
head(Cytometry33)
data(Cytometry33)
head(Cytometry33)

Cytometry34

Description

A simulated flow cytometry dataset, as a data frame, of an individual with Diffuse Large B-Cell Lymphoma based on data taken following Euroflow protocols.

Usage

data("Cytometry34")data("Cytometry34")

Format

A data frame with 300000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry34)
head(Cytometry34)
data(Cytometry34)
head(Cytometry34)

Cytometry35

Description

A simulated flow cytometry dataset, as a data frame, of an individual with a Hairy Cell Leukemia based on data taken following Euroflow protocols.

Usage

data("Cytometry35")data("Cytometry35")

Format

A data frame with 213720 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry35)
head(Cytometry35)
data(Cytometry35)
head(Cytometry35)

Cytometry36

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry36")data("Cytometry36")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry36)
head(Cytometry36)
data(Cytometry36)
head(Cytometry36)

Cytometry37

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry37")data("Cytometry37")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry37)
head(Cytometry37)
data(Cytometry37)
head(Cytometry37)

Cytometry38

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry38")data("Cytometry38")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry38)
head(Cytometry38)
data(Cytometry38)
head(Cytometry38)

Cytometry39

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry39")data("Cytometry39")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry39)
head(Cytometry39)
data(Cytometry39)
head(Cytometry39)

Cytometry4

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry4")data("Cytometry4")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry4)
head(Cytometry4)
data(Cytometry4)
head(Cytometry4)

Cytometry40

Description

A simulated flow cytometry dataset, as a data frame, of a healthy individual based on data taken following Euroflow protocols.

Usage

data("Cytometry40")data("Cytometry40")

Format

A data frame with 145075 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry40)
head(Cytometry40)
data(Cytometry40)
head(Cytometry40)

Cytometry5

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry5")data("Cytometry5")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry5)
head(Cytometry5)
data(Cytometry5)
head(Cytometry5)

Cytometry6

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry6")data("Cytometry6")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry6)
head(Cytometry6)
data(Cytometry6)
head(Cytometry6)

Cytometry7

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry7")data("Cytometry7")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry7)
head(Cytometry7)
data(Cytometry7)
head(Cytometry7)

Cytometry8

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry8")data("Cytometry8")

Format

A data frame with 50000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry8)
head(Cytometry8)
data(Cytometry8)
head(Cytometry8)

Cytometry9

Description

A simulated flow cytometry dataset, as a data frame, of a healty individual based on data taken following Euroflow protocols.

Usage

data("Cytometry9")data("Cytometry9")

Format

A data frame with 100000 observations on the following 11 variables.

CD19/TCRgd:PE Cy7-A LOGICAL: an integer vector.
CD38:APC H7-A LOGICAL: an integer vector.
CD3:APC-A LOGICAL: an integer vector.
CD4+CD20:PB-A LOGICAL: an integer vector.
CD45:PO-A LOGICAL: an integer vector.
CD56+IgK:PE-A LOGICAL: an integer vector.
CD5:PerCP Cy5-5-A LOGICAL: an integer vector.
CD8+IgL:FITC-A LOGICAL: an integer vector.
FSC-A LINEAR: an integer vector.
SSC-A Exp-SSC Low: an integer vector.
Population ID (name): a vector of cell types (strings)

Source

E del Barrio, H Inouzhe, JM Loubes, C Matran and A Mayo-Iscar. (2019) optimalFlow: Optimal-transport approach to flow cytometry gating and population matching. arXiv:1907.08006

Examples

data(Cytometry9)
head(Cytometry9)
data(Cytometry9)
head(Cytometry9)

noise.types

Description

A list of cells that can be considered as noise (Debris and Doublets).

Usage

data("noise_types")data("noise_types")

Format

A list 38 cell types that can be viewd as noise.

Examples

data(noise.types)
print(noise.types)
data(noise.types)
print(noise.types)

Package 'optimalFlowData'

Help Index

buildDatabase

Description

Usage

Arguments

Value

Examples

cytometry.diagnosis

Description

Usage

Format

Examples

Cytometry1

Description

Usage

Format

Source

Examples

Cytometry10

Description

Usage

Format

Source

Examples

Cytometry11

Description

Usage

Format

Source

Examples

Cytometry12

Description

Usage

Format

Source

Examples

Cytometry13

Description

Usage

Format

Source

Examples

Cytometry14

Description

Usage

Format

Source

Examples

Cytometry15

Description

Usage

Format

Source

Examples

Cytometry16

Description

Usage

Format

Source

Examples

Cytometry17

Description

Usage

Format

Source

Examples

Cytometry18

Description

Usage

Format

Source

Examples

Cytometry19

Description

Usage

Format

Source

Examples

Cytometry2