PST: Probabilistic Suffix Trees and Variable Length Markov Chains

Provides a framework for analysing state sequences with probabilistic suffix trees (PST), the construction that stores variable length Markov chains (VLMC). Besides functions for learning and optimizing VLMC models, the PST library includes many additional tools to analyse sequence data with these models: visualization tools, functions for sequence prediction and artificial sequences generation, as well as for context and pattern mining. The package is specifically adapted to the field of social sciences by allowing to learn VLMC models from sets of individual sequences possibly containing missing values, and by accounting for case weights. The library also allows to compute probabilistic divergence between two models, and to fit segmented VLMC, where sub-models fitted to distinct strata of the learning sample are stored in a single PST. This software results from research work executed within the framework of the Swiss National Centre of Competence in Research LIVES, which is financed by the Swiss National Science Foundation. The authors are grateful to the Swiss National Science Foundation for its financial support.

AuthorAlexis Gabadinho [aut, cre, cph]
Date of publication2017-02-03 00:26:10
MaintainerAlexis Gabadinho <alexis.gabadinho@wanadoo.fr>
LicenseGPL (>= 2)
Version0.94
http://r-forge.r-project.org/projects/pst

View on CRAN

Functions

cmine Man page
cmine,PSTf-method Man page
cmine,PSTf-method Man page
cplot Man page
cplot,PSTf-method Man page
cplot,PSTf-method Man page
cprob Man page
[,cprobd.list,ANY,ANY,ANY-method Man page
[,cprobd.list-method Man page
cprob-methods Man page
cprob,stslist-method Man page
generate Man page
generate,PSTf-method Man page
generate,PSTf-method Man page
impute Man page
impute,PSTf,stslist-method Man page
impute,PSTf,stslist-method Man page
lnobs Man page
logLik Man page
logLik,PSTf-method Man page
logLik,PSTf-method Man page
nobs,PSTf-method Man page
nobs,PSTf-method Man page
nodenames Man page
nodenames-methods Man page
nodenames,PSTf-method Man page
nodenames,PSTf-method Man page
pdist Man page
pdist,PSTf,PSTf-method Man page
pdist,PSTf,PSTf-method Man page
plot,cprobd.list,ANY-method Man page
plot,PSTf,ANY-method Man page
plot,PSTf,ANY-method Man page
plot,PSTr,ANY-method Man page
plot,PSTr,ANY-method Man page
pmine Man page
pmine-methods Man page
pmine,PSTf,stslist-method Man page
pmine,PSTf,stslist-method Man page
ppplot Man page
ppplot,PSTf-method Man page
ppplot,PSTf-method Man page
pqplot Man page
pqplot,PSTf,stslist-method Man page
pqplot,PSTf,stslist-method Man page
predict Man page
predict,PSTf-method Man page
predict,PSTf-method Man page
print Man page
print-methods Man page
print,PSTf-method Man page
print,PSTf-method Man page
print,PSTr-method Man page
print,PSTr-method Man page
prune Man page
prune-methods Man page
prune,PSTf-method Man page
prune,PSTf-method Man page
PSTf-class Man page
PSTr-class Man page
pstree Man page
pstree-methods Man page
pstree,stslist-method Man page
[[,PSTr-method Man page
query Man page
query-methods Man page
query,PSTf-method Man page
query,PSTf-method Man page
round,cprobd-method Man page
s1 Man page
SRH Man page
SRH.seq Man page
subtree Man page
subtree,PSTf-method Man page
subtree,PSTf-method Man page
summary,PSTf-method Man page
summary,PSTf-method Man page
summary,PSTr-method Man page
summary,PSTr-method Man page
tune Man page
tune,PSTf-method Man page
tune,PSTf-method Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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