DOI: 10.18129/B9.bioc.SamSPECTRAL  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see SamSPECTRAL.

Identifies cell population in flow cytometry data

Bioconductor version: 3.16

Samples large data such that spectral clustering is possible while preserving density information in edge weights. More specifically, given a matrix of coordinates as input, SamSPECTRAL first builds the communities to sample the data points. Then, it builds a graph and after weighting the edges by conductance computation, the graph is passed to a classic spectral clustering algorithm to find the spectral clusters. The last stage of SamSPECTRAL is to combine the spectral clusters. The resulting "connected components" estimate biological cell populations in the data. See the vignette for more details on how to use this package, some illustrations, and simple examples.

Author: Habil Zare and Parisa Shooshtari

Maintainer: Habil <zare at>

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PDF R Script A modified spectral clustering method for clustering Flow Cytometry Data
PDF   Reference Manual


biocViews Cancer, CellBiology, Clustering, FlowCytometry, HIV, ImmunoOncology, Software, StemCells
Version 1.52.0
In Bioconductor since BioC 2.6 (R-2.11) (13 years)
License GPL (>= 2)
Depends R (>= 3.3.3)
Imports methods
Depends On Me
Imports Me CONFESS, ddPCRclust
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