thibautjombart/OutbreakTools
Basic Tools for the Analysis of Disease Outbreaks

Package index
Search the thibautjombart/OutbreakTools package
Vignettes
Functions
223
Source code
41
Man pages
30
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thibautjombart/OutbreakTools: Basic Tools for the Analysis of Disease Outbreaks
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API

API for thibautjombart/OutbreakTools
Basic Tools for the Analysis of Disease Outbreaks

Global functions
.annotated.clado.build Source code
.annotated.tree.build Source code
.extract.string Source code
.importFromJSON Source code
.inlineSummary Source code
.meltDateProof Source code
.onAttach Source code
.parse.traits Source code
.parse.value Source code
.process.Date Source code
.resample Source code
.restoreNumericType Source code
.retrieveLabelsFromDataframe Source code
.split.tree.names Source code
.split.tree.traits Source code
.strip.annotations Source code
DNAbin-class Man page
DNAbinOrNULL Man page
DNAbinOrNULL-class Man page
DateOrNULL Man page
DateOrNULL-class Man page
FluH1N1pdm2009 Man page
HorseFlu Man page
HorseFluRaw Man page
JSON2obkData Man page Source code
OutbreakTools Man page
OutbreakTools-package Man page
POSIXctOrNULL Man page
POSIXctOrNULL-class Man page
ToyOutbreak Man page
ToyOutbreakRaw Man page
[,obkContacts,ANY,ANY-method Man page
[,obkContacts-method Man page
as.data.frame,obkContacts-method Man page
as.data.frame.obkContacts Man page
as.matrix,obkContacts-method Man page
as.matrix.obkContacts Man page
characterOrNULL Man page
characterOrNULL-class Man page
data.frameOrNULL Man page
data.frameOrNULL-class Man page
dna2uniqSequences Man page Source code
factorNULL Man page
factorNULL-class Man page
get.contacts Man page
get.contacts,obkContacts-method Man page
get.contacts,obkData-method Man page
get.contacts.obkContacts Man page
get.contacts.obkData Man page
get.context Man page
get.context,obkData-method Man page
get.context.obkData Man page
get.data Man page
get.data,obkData-method Man page
get.data.obkData Man page
get.dates Man page
get.dates,obkContacts-method Man page
get.dates,obkData-method Man page
get.dates,obkSequences-method Man page
get.dates.obkContacts Man page
get.dates.obkData Man page
get.dates.obkSequences Man page
get.dna Man page
get.dna,obkData-method Man page
get.dna,obkSequences-method Man page
get.dna.obkData Man page
get.dna.obkSequences Man page
get.id Man page
get.id,obkSequences-method Man page
get.incidence Man page
get.incidence,Date-method Man page
get.incidence,obkContacts-method Man page
get.incidence,obkData-method Man page
get.incidence,obkSequences-method Man page
get.incidence.Date Man page
get.incidence.obkContacts Man page
get.incidence.obkData Man page
get.incidence.obkSequences Man page
get.individuals Man page
get.individuals,obkContacts-method Man page
get.individuals,obkData-method Man page
get.individuals,obkSequences-method Man page
get.individuals.obkContacts Man page
get.individuals.obkData Man page
get.individuals.obkSequences Man page
get.locus Man page
get.locus,obkData-method Man page
get.locus,obkSequences-method Man page
get.locus.obkData Man page
get.locus.obkSequences Man page
get.ncontacts Man page
get.ncontacts,obkContacts-method Man page Man page
get.ncontacts,obkData-method Man page
get.ncontacts.obkContacts Man page Man page
get.ncontacts.obkData Man page
get.ncontext Man page
get.ncontext,obkData-method Man page
get.ncontext.obkData Man page
get.ndates Man page
get.ndates,obkContacts-method Man page
get.ndates,obkData-method Man page
get.ndates,obkSequences-method Man page
get.ndates.obkContacts Man page
get.ndates.obkData Man page
get.ndates.obkSequences Man page
get.nindividuals Man page
get.nindividuals,obkContacts-method Man page
get.nindividuals,obkData-method Man page
get.nindividuals,obkSequences-method Man page
get.nindividuals.obkContacts Man page
get.nindividuals.obkData Man page
get.nindividuals.obkSequences Man page
get.nlocus Man page
get.nlocus,obkData-method Man page
get.nlocus,obkSequences-method Man page
get.nlocus.obkData Man page
get.nlocus.obkSequences Man page
get.nrecords Man page
get.nrecords,obkData-method Man page
get.nrecords.obkData Man page
get.nsequences Man page
get.nsequences,obkData-method Man page
get.nsequences,obkSequences-method Man page
get.nsequences.obkData Man page
get.nsequences.obkSequences Man page
get.ntrees Man page
get.ntrees,obkData-method Man page
get.ntrees.obkData Man page
get.records Man page
get.records,obkData-method Man page
get.records.obkData Man page
get.sequences Man page
get.sequences,obkData-method Man page
get.sequences,obkSequences-method Man page
get.sequences.obkData Man page
get.sequences.obkSequences Man page
get.trees Man page
get.trees,obkData-method Man page
get.trees.obkData Man page
head,obkData-method Man page
head.obkData Man page
initialize,obkContacts-method Man page
initialize,obkData-method Man page
initialize,obkSequences-method Man page
initialize,uniqSequences-method Man page
integerOrNULL Man page
integerOrNULL-class Man page
listOrNULL Man page
listOrNULL-class Man page
make.individual.attributes Man page Source code
make.phylo Man page
make.phylo,obkData-method Man page
make.phylo.obkData Man page
make.sequence.attributes Man page Source code
make.tip.attributes Man page Source code
matrixOrNULL Man page
matrixOrNULL-class Man page
multiPhylo-class Man page
multiPhyloOrNULL Man page
multiPhyloOrNULL-class Man page
network-class Man page
networkDynamic-class Man page
networkDynamicOrNetwork-class Man page
networkDynamicOrNetworkOrNULL-class Man page
numericOrNULL Man page
numericOrNULL-class Man page
obkContacts Man page
obkContacts-class Man page
obkContactsOrNULL Man page
obkContactsOrNULL-class Man page
obkData Man page
obkData-class Man page
obkSequences Man page
obkSequences-class Man page
obkSequencesOrNULL-class Man page
phylo-class Man page
phylo2ggphy Man page Source code
phylofromtranstree Man page Source code
plot,obkContacts,ANY-method Man page
plot,obkContacts-method Man page
plot,obkData,ANY-method Man page
plot,obkData-method Man page
plot.obkContacts Man page
plot.obkData Man page
plotEpi Man page Source code
plotGeo Man page Source code
plotIndividualTimeline Man page Source code
plotggMST Man page Source code
plotggphy Man page Source code
print.obkContacts Man page
read.annotated.nexus Man page
read.annotated.tree Man page
show,obkContacts-method Man page
show,obkData-method Man page
show,obkSequences-method Man page
show.obkContacts Man page
simuEpi Man page
subset,obkContacts-method Man page
subset,obkData-method Man page
subset,obkSequences-method Man page
subset.obkContacts Man page
subset.obkData Man page
subset.obkSequences Man page
summary,obkData-method Man page
summary.obkData Man page
tail,obkData-method Man page
tail.obkData Man page
uniqSequences Man page
uniqSequences-class Man page
thibautjombart/OutbreakTools documentation built on Oct. 26, 2019, 10:56 p.m.

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