Last data update: 2014.03.03

pcalg

Package: pcalg
Version: 2.2-4
Date: 2015-07-22
Title: Methods for Graphical Models and Causal Inference
Description: Functions for causal structure
learning and causal inference using graphical models. The main algorithms
for causal structure learning are PC (for observational data without hidden
variables), FCI and RFCI (for observational data with hidden variables),
and GIES (for a mix of data from observational studies
(i.e. observational data) and data from experiments
involving interventions (i.e. interventional data) without hidden
variables). For causal inference the IDA algorithm, the Generalized
Backdoor Criterion (GBC) and the Generalized Adjustment Criterion (GAC)
are implemented.
Maintainer: Markus Kalisch <kalisch@stat.math.ethz.ch>
Authors@R: c(person("Markus","Kalisch",
email="kalisch@stat.math.ethz.ch", role=c("aut","cre")),
person("Alain", "Hauser", role="aut"), person("Martin","Maechler", role="aut"),
person("Diego", "Colombo", role="ctb"), person("Doris", "Entner", role="ctb"),
person("Patrik","Hoyer", role="ctb"), person("Antti", "Hyttinen", role="ctb"),
person("Jonas", "Peters", role="ctb"))
Author: Markus Kalisch [aut, cre], Alain Hauser [aut], Martin Maechler [aut],
Diego Colombo [ctb], Doris Entner [ctb], Patrik Hoyer [ctb],
Antti Hyttinen [ctb], Jonas Peters [ctb]
Depends: R (>= 3.0.2)
LinkingTo: Rcpp (>= 0.11.0), RcppArmadillo, BH
Imports: stats, graphics, utils, methods, abind, graph, RBGL, igraph,
ggm, corpcor, robustbase, vcd, Rcpp, bdsmatrix, sfsmisc (>=
1.0-26), fastICA, clue, gmp
Suggests: MASS, Matrix, Rgraphviz, mvtnorm
ByteCompile: yes
NeedsCompilation: yes
Encoding: UTF-8
License: GPL (>= 2)
URL: http://pcalg.r-forge.r-project.org/
Packaged: 2015-07-22 14:53:53 UTC; maechler
Repository: CRAN
Date/Publication: 2015-07-23 09:21:52

● Cran Task View: gR
● 0 images, 73 functions, 6 datasets
● Reverse Depends: 1

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'pcalg' ...
** package 'pcalg' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"  -I"../inst/include" -fpic  -g -O2  -c constraint.cpp -o constraint.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"  -I"../inst/include" -fpic  -g -O2  -c gies.cpp -o gies.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"  -I"../inst/include" -fpic  -g -O2  -c greedy.cpp -o greedy.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"  -I"../inst/include" -fpic  -g -O2  -c score.cpp -o score.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o pcalg.so constraint.o gies.o greedy.o score.o -L/home/ddbj/local/lib64/R/lib -lRlapack -L/home/ddbj/local/lib64/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/pcalg/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'summary' from package 'base' in package 'pcalg'
Creating a generic function for 'plot' from package 'graphics' in package 'pcalg'
Creating a generic function for 'predict' from package 'stats' in package 'pcalg'
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** help
*** installing help indices
  converting help for package 'pcalg'
    finding HTML links ... done
    EssGraph-class                          html  
    GaussL0penIntScore-class                html  
    GaussL0penObsScore-class                html  
    GaussParDAG-class                       html  
    LINGAM                                  html  
    finding level-2 HTML links ... done

    ParDAG-class                            html  
    Score-class                             html  
    backdoor                                html  
    beta.special                            html  
    beta.special.pcObj                      html  
    binCItest                               html  
    checkTriple                             html  
    compareGraphs                           html  
    condIndFisherZ                          html  
    corGraph                                html  
    dag2cpdag                               html  
    dag2essgraph                            html  
    dag2pag                                 html  
    disCItest                               html  
    dreach                                  html  
    dsep                                    html  
    dsepTest                                html  
    fci                                     html  
    fciAlgo-class                           html  
    fciPlus                                 html  
    find.unsh.triple                        html  
    gAlgo-class                             html  
    gac                                     html  
    gds                                     html  
    ges                                     html  
    getGraph                                html  
    getNextSet                              html  
    gies                                    html  
    gmB                                     html  
    gmD                                     html  
    gmG                                     html  
    gmI                                     html  
    gmInt                                   html  
    gmL                                     html  
    ida                                     html  
    idaFast                                 html  
    iplotPC                                 html  
    jointIda                                html  
    legal.path                              html  
    mat2targets                             html  
    mcor                                    html  
    pag2mag                                 html  
    pc                                      html  
    pc.cons.intern                          html  
    pcAlgo-class                            html  
    pcAlgo                                  html  
    pcSelect                                html  
    pcSelect.presel                         html  
    pcalg-internal                          html  
    pcorOrder                               html  
    pdag2dag                                html  
    pdsep                                   html  
    plotAG                                  html  
    plotSG                                  html  
    possibleDe                              html  
    qreach                                  html  
    r.gauss.pardag                          html  
    randDAG                                 html  
Rd warning: /tmp/Rtmp6TJRie/R.INSTALL679e10ffa882/pcalg/man/randDAG.Rd:77: missing file link 'graphNEL'
Rd warning: /tmp/Rtmp6TJRie/R.INSTALL679e10ffa882/pcalg/man/randDAG.Rd:91: missing file link 'random.graph.game'
Rd warning: /tmp/Rtmp6TJRie/R.INSTALL679e10ffa882/pcalg/man/randDAG.Rd:91: missing file link 'barabasi.game'
    randomDAG                               html  
    rfci                                    html  
    rmvDAG                                  html  
    rmvnorm.ivent                           html  
    shd                                     html  
    showAmat                                html  
    showEdgeList                            html  
    simy                                    html  
    skeleton                                html  
    trueCov                                 html  
    udag2apag                               html  
    udag2pag                                html  
    udag2pdag                               html  
    unifDAG                                 html  
Rd warning: /tmp/Rtmp6TJRie/R.INSTALL679e10ffa882/pcalg/man/unifDAG.Rd:53: missing file link 'graphNEL'
    visibleEdge                             html  
    wgtMatrix                               html  
** building package indices
** installing vignettes
   'pcalgDoc.Rnw' using 'UTF-8' 
** testing if installed package can be loaded
* DONE (pcalg)
Making 'packages.html' ... done

Created & Maintained by Osamu Ogasawara (osamu.ogasawara@gmail.com) and IMSBIO