CLUSTER-class: CLUSTER class definition
In tchitchek-lab/CytoCompare: Computational comparisons of cytometry profiles
Description
CLUSTER is a S4 object containing one or several cell cluster profiles.
Details
This object mainly stores for each cell cluster profile, the means, the standard deviations and the densities of each marker.
Slots
namea character indicating the internal name of the CLUSTER object
profilesa character vector containing the names of the cell cluster profiles
profiles.nban integer value indicating the number of cell cluster profiles
profiles.sizesan integer vector indicating the number of cells associated to each cluster profile
markersa character vector containing the marker names
markers.nban integer value indicating the number of markers
markers.clusteringa logical vector specifying the makers used as clustering markers
meansa numeric matrix containing the means of each maker for each cluster profile
sda numeric matrix containing the standard deviations of each maker for each cluster profile
densitiesa matrix of DENSITY objects containing the densities of each marker for each cluster profile
overview.functiona character specifying the name of a function to call when plotting the CLUSTER object overview (please refer to the documentation of the 'plot()' function)
graphan object that can be used to store a visual representation of the cell clusters (e.g. a SPADE tree)
graph.layouta numeric matrix that can be used to store the positions of cell clusters in a 2-dimensional space (e.g. a SPADE tree layout)
tchitchek-lab/CytoCompare documentation built on May 31, 2019, 7:29 a.m.
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Description
CLUSTER is a S4 object containing one or several cell cluster profiles.
Details
This object mainly stores for each cell cluster profile, the means, the standard deviations and the densities of each marker.
Slots
namea character indicating the internal name of the CLUSTER object
profilesa character vector containing the names of the cell cluster profiles
profiles.nban integer value indicating the number of cell cluster profiles
profiles.sizesan integer vector indicating the number of cells associated to each cluster profile
markersa character vector containing the marker names
markers.nban integer value indicating the number of markers
markers.clusteringa logical vector specifying the makers used as clustering markers
meansa numeric matrix containing the means of each maker for each cluster profile
sda numeric matrix containing the standard deviations of each maker for each cluster profile
densitiesa matrix of DENSITY objects containing the densities of each marker for each cluster profile
overview.functiona character specifying the name of a function to call when plotting the CLUSTER object overview (please refer to the documentation of the 'plot()' function)
graphan object that can be used to store a visual representation of the cell clusters (e.g. a SPADE tree)
graph.layouta numeric matrix that can be used to store the positions of cell clusters in a 2-dimensional space (e.g. a SPADE tree layout)
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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