MXM: Discovering Multiple, Statistically-Equivalent Signatures

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Feature selection methods for identifying minimal, statistically-equivalent and equally-predictive feature subsets. Bayesian network algorithms and related functions are also included. The package name 'MXM' stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin.

Author
Ioannis Tsamardinos, Vincenzo Lagani, Giorgos Athineou, Michail Tsagris, Giorgos Borboudakis, Anna Roumpelaki
Date of publication
2016-11-02 18:15:20
Maintainer
Michail Tsagris <mtsagris@csd.uoc.gr>
License
GPL-2
Version
0.9.5
URLs

View on CRAN

Man pages

auc
ROC and area under the curve
bic.fsreg
Variable selection in regression models with forward...
bic.glm.fsreg
Variable selection in generalised linear models with forward...
bs.reg
Variable selection in regression models with forward...
censIndCR
Conditional independence test for survival data
condi
Fisher conditional independence test for continuous class...
cv.ses
Cross-Validation for SES and MMPC
dag2eg
Transforms a DAG into an essential graph
equivdags
Check Markov equivalence of two DAGs
findDescendants
Returns and plots, if asked, the descendants or ancestors of...
fs.reg
Variable selection in regression models with forward...
generatefolds
Generate random folds for cross-validation
glm.bsreg
Variable selection in generalised linear regression models...
glm.fsreg
Variable selection in generalised linear regression models...
gSquare
G-square conditional independence test for discrete data
lm.fsreg
Variable selection in linear regression models with forward...
mammpc.output-class
Class '"mammpc.output"'
ma.ses
ma.ses: Feature selection algorithm for identifying multiple...
mases.output-class
Class '"mases.output"'
mb
Returns and plots, if asked, the Markov blanket of a node (or...
mmhc.skel
The skeleton of a Bayesian network as produced by MMHC
mmmb
Max-min Markov blanket algorithm
MMPCoutput-class
Class '"MMPCoutput"'
mmpc.path
MMPC solution paths for many combinations of hyper-parameters
MMPC.temporal.output-class
Class '"MMPC.temporal.output"'
MXMCondIndTests
MXM Conditional independence tests
MXM-internal
Internal MXM Functions
MXM-package
This is an R package that currently implements feature...
nei
Returns and plots, if asked, the node(s) and their...
partialcor
Partial correlation
pc.or
The orientations part of the PC algorithm.
pc.skel
The skeleton of a Bayesian network produced by the PC...
permcor
Permutation based p-value for the Pearson correlation...
plota
Plot of an (un)directed graph
rdag
Simulation of data from DAG (directed acyclic graph)
reg.fit
Regression modelling
ridge.plot
Ridge regression
ridge.reg
Ridge regression
ridgereg.cv
Cross validation for the ridge regression
SES
SES: Feature selection algorithm for identifying multiple...
ses.model
Regression model(s) obtained from SES or MMPC
SESoutput-class
Class '"SESoutput"'
SES.temporal
SES.temporal: Feature selection algorithm for identifying...
SES.temporal.output-class
Class '"SES.temporal.output"'
tc.plot
Plot of longitudinal data
testIndBeta
Beta regression conditional independence test for...
testIndBinom
Binomial regression conditional independence test for success...
testIndClogit
Conditional independence test based on conditional logistic...
testIndFisher
Fisher and Spearman conditional independence test for...
testIndGLMM
Linear mixed models conditional independence test for...
testIndLogistic
Conditional independence test for binary, categorical or...
testIndPois
Regression conditional independence test for discrete...
testIndReg
Linear (and non-linear) regression conditional independence...
testIndSpeedglm
Conditional independence test for continuous, binary and...
transitiveClosure
Returns the transitive closure of an adjacency matrix
undir.path
Undirected path(s) between two nodes

Files in this package

MXM
MXM/inst
MXM/inst/CITATION
MXM/NAMESPACE
MXM/R
MXM/R/SES.R
MXM/R/testIndLogistic.R
MXM/R/rdag.R
MXM/R/permcor.R
MXM/R/lm.fsreg.R
MXM/R/testIndClogit.R
MXM/R/censIndCR.R
MXM/R/ma.mmpc.R
MXM/R/transitiveClosure.R
MXM/R/cvses.par.R
MXM/R/bic.glm.fsreg.R
MXM/R/SES.temporal.R
MXM/R/pc.or.R
MXM/R/glm.fsreg.R
MXM/R/mmpc.path.R
MXM/R/topological_sort.R
MXM/R/bic.fsreg.R
MXM/R/testIndIGreg.R
MXM/R/testIndGLMM.R
MXM/R/testIndSpearman.R
MXM/R/testIndReg.R
MXM/R/testIndZIP.R
MXM/R/cv.mmpc.R
MXM/R/cvmmpc.par.R
MXM/R/testIndRQ.R
MXM/R/MMPC.R
MXM/R/findDescendants.R
MXM/R/censIndWR.R
MXM/R/bs.reg.R
MXM/R/lm.fsreg_2.R
MXM/R/ridge.reg.R
MXM/R/gSquare.R
MXM/R/generatefolds.R
MXM/R/dag2eg.R
MXM/R/plota.R
MXM/R/ma.ses.R
MXM/R/testIndFisher.R
MXM/R/MMPC.temporal.R
MXM/R/mammpc.output_script.R
MXM/R/glm.bsreg.R
MXM/R/condi.R
MXM/R/testIndMVreg.R
MXM/R/mmpc.model.R
MXM/R/SES.temporal.opoutput_script.R
MXM/R/equivdags.R
MXM/R/findAncestors.R
MXM/R/testIndPois.R
MXM/R/ses.model.R
MXM/R/testIndNB.R
MXM/R/undir.path.R
MXM/R/MMPCoutput_script.R
MXM/R/MMPC.temporal.output_script.R
MXM/R/dag_to_eg.R
MXM/R/testIndSpeedglm.R
MXM/R/mases.output_script.R
MXM/R/pc.con.R
MXM/R/ridge.plot.R
MXM/R/testIndBinom.R
MXM/R/ridgereg.cv.R
MXM/R/censIndER.R
MXM/R/pc.skel.R
MXM/R/partialcor.R
MXM/R/glm.fsreg_2.R
MXM/R/mb.R
MXM/R/nei.R
MXM/R/reg.fit.R
MXM/R/tc.plot.R
MXM/R/cat.ci.R
MXM/R/testIndBeta.R
MXM/R/cv.ses.R
MXM/R/auc.R
MXM/R/fs.reg.R
MXM/R/SESoutput_script.R
MXM/R/mmhc.skel.R
MXM/R/mmmb.R
MXM/MD5
MXM/DESCRIPTION
MXM/man
MXM/man/dag2eg.Rd
MXM/man/SES.temporal.output-class.Rd
MXM/man/gSquare.Rd
MXM/man/censIndCR.Rd
MXM/man/testIndGLMM.Rd
MXM/man/testIndBinom.Rd
MXM/man/mammpc.output-class.Rd
MXM/man/rdag.Rd
MXM/man/findDescendants.Rd
MXM/man/MXMCondIndTests.Rd
MXM/man/testIndBeta.Rd
MXM/man/glm.fsreg.Rd
MXM/man/bic.fsreg.Rd
MXM/man/ses.model.Rd
MXM/man/equivdags.Rd
MXM/man/testIndClogit.Rd
MXM/man/testIndPois.Rd
MXM/man/generatefolds.Rd
MXM/man/partialcor.Rd
MXM/man/MMPCoutput-class.Rd
MXM/man/MXM-package.Rd
MXM/man/tc.plot.Rd
MXM/man/auc.Rd
MXM/man/testIndSpeedglm.Rd
MXM/man/MMPC.temporal.output-class.Rd
MXM/man/testIndLogistic.Rd
MXM/man/bs.reg.Rd
MXM/man/transitiveClosure.Rd
MXM/man/bic.glm.fsreg.Rd
MXM/man/condi.Rd
MXM/man/reg.fit.Rd
MXM/man/lm.fsreg.Rd
MXM/man/testIndReg.Rd
MXM/man/ridge.plot.Rd
MXM/man/ridgereg.cv.Rd
MXM/man/ridge.reg.Rd
MXM/man/cv.ses.Rd
MXM/man/fs.reg.Rd
MXM/man/SES.Rd
MXM/man/mmmb.Rd
MXM/man/pc.or.Rd
MXM/man/undir.path.Rd
MXM/man/SESoutput-class.Rd
MXM/man/permcor.Rd
MXM/man/nei.Rd
MXM/man/plota.Rd
MXM/man/mmpc.path.Rd
MXM/man/SES.temporal.Rd
MXM/man/MXM-internal.Rd
MXM/man/mmhc.skel.Rd
MXM/man/ma.ses.Rd
MXM/man/mb.Rd
MXM/man/glm.bsreg.Rd
MXM/man/testIndFisher.Rd
MXM/man/mases.output-class.Rd
MXM/man/pc.skel.Rd