API for BIMIB-DISCo/TRONCO
TRONCO, an R package for TRanslational ONCOlogy

Global functions
AND Man page Source code
OR Man page Source code
TCGA.map.clinical.data Man page Source code
TCGA.multiple.samples Man page Source code
TCGA.remove.multiple.samples Man page Source code
TCGA.shorten.barcodes Man page Source code
XOR Man page Source code
aCML Man page
annotate.description Man page Source code
annotate.stages Man page Source code
as.adj.matrix Man page Source code
as.alterations Man page Source code
as.bnlearn.network Source code
as.bootstrap.scores Man page Source code
as.categorical.dataset Source code
as.colors Man page Source code
as.conditional.probs Man page Source code
as.confidence Man page Source code
as.description Man page Source code
as.error.rates Source code
as.events Man page Source code
as.events.in.patterns Man page Source code
as.events.in.sample Man page Source code
as.gene Man page Source code
as.genes Man page Source code
as.genes.in.patterns Man page Source code
as.genotypes Man page Source code
as.hypotheses Man page Source code
as.joint.probs Man page Source code
as.kfold.eloss Man page Source code
as.kfold.posterr Man page Source code
as.kfold.prederr Man page Source code
as.marginal.probs Man page Source code
as.models Man page Source code
as.parameters Man page Source code
as.parents.pos Source code
as.pathway Man page Source code
as.patterns Man page Source code
as.samples Man page Source code
as.selective.advantage.relations Man page Source code
as.stages Man page Source code
as.types Man page Source code
as.types.in.patterns Man page Source code
aux.log Source code
bootstrap Source code
caprese.fit Source code
capri.fit Source code
cbio.query Man page Source code
change.color Man page Source code
check.dataset Source code
chow.liu.fit Source code
cluster.sensitivity Source code
cluster_mat Source code
compute.edmonds.score Source code
compute.mi.score Source code
consolidate.data Man page Source code
convert_annotations Source code
crc_gistic Man page
crc_maf Man page
crc_plain Man page
create.model Source code
decimal.to.binary.dag Source code
delete.event Man page Source code
delete.gene Man page Source code
delete.hypothesis Man page Source code
delete.model Man page Source code
delete.pattern Man page Source code
delete.samples Man page Source code
delete.type Man page Source code
draw_annotation_legend Source code
draw_annotation_names Source code
draw_annotations Source code
draw_colnames Source code
draw_dendrogram Source code
draw_legend Source code
draw_main Source code
draw_matrix Source code
draw_rownames Source code
duplicates Man page Source code
ebind Man page Source code
edmonds.fit Source code
emap Source code
enforce.numeric Man page Source code
enforce.string Man page Source code
estimate.theoretical.probs Source code
events.selection Man page Source code
export.graphml Man page Source code
export.mutex Man page Source code
export.nbs.input Man page Source code
extract.MAF.HuGO.Entrez.map Man page Source code
find.best.subtree Source code
find_coordinates Source code
find_gaps Source code
gabow.fit Source code
generate_annotation_colours Source code
generate_breaks Source code
genes.table.report Man page Source code
get.best.scored.tree Source code
get.bootstrapped.scores Source code
get.dag.scores Source code
get.lifted.pattern Source code
get.prima.facie.causes.do.boot Source code
get.prima.facie.causes.no.boot Source code
get.prima.facie.parents.do.boot Source code
get.prima.facie.parents.no.boot Source code
get.tree.parents Source code
get.tree.scores Source code
has.duplicates Man page Source code
has.model Man page Source code
has.stages Man page Source code
heatmap_motor Source code
hypotheses.expansion Source code
hypothesis.add Man page Source code
hypothesis.add.group Man page Source code
hypothesis.add.homologous Man page Source code
hypothesis.adj.matrix Source code
hypothesis.lifted.effects Source code
import.GISTIC Man page Source code
import.MAF Man page Source code
import.genotypes Man page Source code
import.mutex.groups Man page Source code
intersect.datasets Man page Source code
is.compliant Man page Source code
is.events.list Source code
is.logic.node Source code
is.logic.node.down Source code
is.logic.node.up Source code
is.model Source code
join.events Man page Source code
join.types Man page Source code
keysToNames Man page Source code
kmeans_pheatmap Source code
lo Source code
lregfit Source code
maf Man page
muts Man page
nameToKey Man page Source code
nevents Man page Source code
ngenes Man page Source code
nhypotheses Man page Source code
npatterns Man page Source code
nsamples Man page Source code
ntypes Man page Source code
onLoad Source code
oncoprint Man page Source code
oncoprint.cbio Man page Source code
order.frequency Man page Source code
pairwise.fisher.test Source code
pathway.visualization Man page Source code
perform.likelihood.fit.capri Source code
perform.likelihood.fit.chow.liu Source code
perform.likelihood.fit.edmonds Source code
perform.likelihood.fit.gabow Source code
perform.likelihood.fit.prim Source code
pheatmap Man page Source code
prim.fit Source code
rank.recurrents Man page Source code
remove.caprese.loops Source code
remove.cycles Source code
rename.gene Man page Source code
rename.reconstruction.fields Source code
rename.type Man page Source code
sample.RColorBrewer.colors Source code
samples.selection Man page Source code
sbind Man page Source code
scale_colours Source code
scale_mat Source code
scale_rows Source code
scale_vec_colours Source code
ssplit Man page Source code
stage Man page
test_dataset Man page
test_dataset_no_hypos Man page
test_model Man page
test_model_kfold Man page
trim Man page Source code
tronco.bootstrap Man page Source code
tronco.caprese Man page Source code
tronco.capri Man page Source code
tronco.chowliu Man page Source code
tronco.edmonds Man page Source code
tronco.gabow Man page Source code
tronco.kfold.eloss Man page Source code
tronco.kfold.posterr Man page Source code
tronco.kfold.prederr Man page Source code
tronco.pattern.plot Man page Source code
tronco.plot Man page Source code
tronco.prim Man page Source code
tsplit Source code
verify.constraints.probs Source code
verify.parents Source code
verify.probability.raising.do.boot Source code
verify.probability.raising.no.boot Source code
verify.temporal.priority.do.boot Source code
verify.temporal.priority.no.boot Source code
view Man page Source code
vplayout Source code
which.samples Man page Source code
BIMIB-DISCo/TRONCO documentation built on Sept. 17, 2017, 4:59 p.m.