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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SamSPECTRAL")
In most cases, you don't need to download the package archive at all.
SamSPECTRAL
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This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see SamSPECTRAL.
Identifies cell population in flow cytometry data.
Bioconductor version: 3.4
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 sample. For instructions on manual installation, refer to the PDF file provided in the following documentation.
Author: Habil Zare and Parisa Shooshtari
Maintainer: Habil Zare <zare at txstate.edu>
Citation (from within R,
enter citation("SamSPECTRAL")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SamSPECTRAL")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SamSPECTRAL")
| R Script | A modified spectral clustering method for clustering Flow Cytometry Data | |
| Reference Manual |
Details
| biocViews | Cancer, CellBiology, Clustering, FlowCytometry, HIV, Software, StemCells |
| Version | 1.28.0 |
| In Bioconductor since | BioC 2.6 (R-2.11) (7 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10) |
| Imports | methods |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | CONFESS |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | SamSPECTRAL_1.28.0.tar.gz |
| Windows Binary | SamSPECTRAL_1.28.0.zip (32- & 64-bit) |
| Mac OS X 10.9 (Mavericks) | SamSPECTRAL_1.28.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/SamSPECTRAL/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/SamSPECTRAL/ |
| Package Downloads Report | Download Stats |
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