SamSPECTRAL

Package: SamSPECTRAL
Type: Package
Title: Identifies cell population in flow cytometry data.
Version: 1.26.0
Date: 2009-09-05
Author: Habil Zare and Parisa Shooshtari
Maintainer: Habil Zare <zare@u.washington.edu>
Depends: R (>= 2.10)
Imports: methods
Description: 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.
License: GPL (>= 2)
LazyLoad: yes
biocViews: FlowCytometry, CellBiology, Clustering, Cancer,
FlowCytometry, StemCells, HIV
NeedsCompilation: yes
Packaged: 2016-05-04 03:28:38 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'SamSPECTRAL' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Rinit.c -o Rinit.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c conductance_computation.c -o conductance_computation.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c maximum_of_rows.c -o maximum_of_rows.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o SamSPECTRAL.so Rinit.o conductance_computation.o maximum_of_rows.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/SamSPECTRAL/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'SamSPECTRAL'
    finding HTML links ... done
    Building_Communities                    html  
    Civilized_Spectral_Clustering           html  
    Conductance_Calculation                 html  
    Connecting                              html  
    SamSPECTRAL-package                     html  
    SamSPECTRAL                             html  
    check.SamSPECTRAL.input                 html  
    eigen.values.10                         html  
    eigen.values.1000                       html  
    kneepointDetection                      html  
    small                                   html  
    stmFSC                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (SamSPECTRAL)
Making 'packages.html' ... done