GenomicTuples-package	GenomicTuples-package
$,GTuples-method	GTuples-class
$<-,GTuples,numeric-method	GTuples-class
.allTuplesSortedCpp	dot-allTuplesSortedCpp
.findEqual.GTuples	dot-findEqual.GTuples
.GT2DT	dot-GT2DT
.IPDCpp	dot-IPDCpp
.matrixDiffWithRecycling	dot-matrixDiffWithRecycling
.pcompareGTuplesCpp	dot-pcompareGTuplesCpp
.zero_range	dot-zero_range
as.character,GTuples-method	GTuples-class
as.data.frame,GTuples-method	GTuples-class
as.factor,GTuples-method	GTuples-class
c,GTuples-method	GTuples-class
class:GTuples	GTuples-class
class:GTuplesList	GTuplesList-class
coerce,GRanges,GTuples-method	GTuples-class
coerce,GTuplesList,data.frame-method	GTuplesList-class
coerce,GTuplesList,GRangesList-method	GTuplesList-class
coerce,GTuplesList,list-method	GTuplesList-class
countOverlaps	findOverlaps-methods
countOverlaps,GTuples,GTuples-method	findOverlaps-methods
coverage,GTuples-method	illdefined-methods
coverage,GTuplesList-method	illdefined-methods
disjoin,GTuples-method	illdefined-methods
disjoin,GTuplesList-method	illdefined-methods
disjointBins,GTuples-method	illdefined-methods
distance,GTuples,GTuples-method	nearest-methods
distanceToNearest,GTuples,GTuples-method	nearest-methods
distanceToNearest,GTuples,missing-method	nearest-methods
duplicated,GTuples-method	GTuples-comparison
duplicated.GTuples	GTuples-comparison
elementMetadata,GTuplesList-method	GTuplesList-class
elementMetadata<-,GTuples-method	GTuples-class
elementMetadata<-,GTuplesList-method	GTuplesList-class
end,GTuples-method	GTuples-class
end,GTuplesList-method	GTuplesList-class
end<-,GTuples-method	GTuples-class
end<-,GTuplesList-method	GTuplesList-class
findOverlaps	findOverlaps-methods
findOverlaps,GTuples,GTuples-method	findOverlaps-methods
findOverlaps-methods	findOverlaps-methods
flank,GTuples-method	illdefined-methods
flank,GTuplesList-method	illdefined-methods
follow,GTuples,GTuples-method	nearest-methods
follow,GTuples,missing-method	nearest-methods
gaps,GTuples-method	illdefined-methods
granges,GTuples-method	GTuples-class
gtlist	tuples-squeezers
GTuples	GTuples-class
gtuples	tuples-squeezers
GTuples-class	GTuples-class
GTuples-comparison	GTuples-comparison
GTuplesList	GTuplesList-class
GTuplesList-class	GTuplesList-class
intersect,GTuples,GTuples-method	illdefined-methods
intra-tuple-methods	intra-tuple-methods
IPD	GTuples-class
IPD,GTuples-method	GTuples-class
IPD,GTuplesList-method	GTuplesList-class
is.unsorted,GTuples-method	GTuples-comparison
isDisjoint,GTuples-method	illdefined-methods
isDisjoint,GTuplesList-method	illdefined-methods
length,GTuples-method	GTuples-class
match,GTuples,GTuples-method	GTuples-comparison
names,GTuples-method	GTuples-class
names<-,GTuples-method	GTuples-class
narrow	illdefined-methods
narrow,GTuples-method	illdefined-methods
nearest,GTuples,GTuples-method	nearest-methods
nearest,GTuples,missing-method	nearest-methods
nearest-methods	nearest-methods
Ops,GTuples,numeric-method	illdefined-methods
order,GTuples-method	GTuples-comparison
overlapsAny	findOverlaps-methods
overlapsAny,GTuples,GTuples-method	findOverlaps-methods
pcompare,GTuples,GTuples-method	GTuples-comparison
pgap,GTuples,GTuples-method	illdefined-methods
pintersect,GTuples,GTuples-method	illdefined-methods
pintersect,GTuples,GTuplesList-method	illdefined-methods
pintersect,GTuplesList,GTuples-method	illdefined-methods
pintersect,GTuplesList,GTuplesList-method	illdefined-methods
precede,GTuples,GTuples-method	nearest-methods
precede,GTuples,missing-method	nearest-methods
promoters,GTuples-method	illdefined-methods
promoters,GTuplesList-method	illdefined-methods
psetdiff,GTuples,GTuples-method	illdefined-methods
psetdiff,GTuples,GTuplesList-method	illdefined-methods
psetdiff,GTuplesList,GTuplesList-method	illdefined-methods
punion,GTuples,GTuples-method	illdefined-methods
punion,GTuples,GTuplesList-method	illdefined-methods
punion,GTuplesList,GTuples-method	illdefined-methods
range,GTuples-method	illdefined-methods
range,GTuplesList-method	illdefined-methods
ranges,GTuples-method	GTuples-class
ranges,GTuplesList-method	GTuplesList-class
ranges<-,GTuples-method	GTuples-class
ranges<-,GTuplesList-method	GTuplesList-class
rank,GTuples-method	GTuples-comparison
reduce,GTuples-method	illdefined-methods
reduce,GTuplesList-method	illdefined-methods
relistToClass,GTuples-method	GTuplesList-class
replaceROWS,NULL-method	illdefined-methods
resize,GTuples-method	illdefined-methods
resize,GTuplesList-method	illdefined-methods
restrict,GTuplesList-method	illdefined-methods
score,GTuples-method	GTuples-class
score,GTuplesList-method	GTuplesList-class
score<-,GTuples-method	GTuples-class
score<-,GTuplesList-method	GTuplesList-class
selfmatch,GTuples-method	GTuples-comparison
seqinfo,GTuples-method	GTuples-class
seqinfo,GTuplesList-method	GTuplesList-class
seqinfo<-,GTuples-method	GTuples-class
seqinfo<-,GTuplesList-method	GTuplesList-class
seqnames,GTuples-method	GTuples-class
seqnames,GTuplesList-method	GTuplesList-class
seqnames<-,GTuples-method	GTuples-class
seqnames<-,GTuplesList-method	GTuplesList-class
setdiff,GTuples,GTuples-method	illdefined-methods
shift	intra-tuple-methods
shift,GTuples-method	intra-tuple-methods
shift,GTuplesList-method	intra-tuple-methods
show,GTuples-method	GTuples-class
size	GTuples-class
size,GTuples-method	GTuples-class
size,GTuplesList-method	GTuplesList-class
sort,GTuples-method	GTuples-comparison
sort.GTuples	GTuples-comparison
start,GTuples-method	GTuples-class
start,GTuplesList-method	GTuplesList-class
start<-,GTuples-method	GTuples-class
start<-,GTuplesList-method	GTuplesList-class
strand,GTuples-method	GTuples-class
strand,GTuplesList-method	GTuplesList-class
strand<-,GTuples-method	GTuples-class
strand<-,GTuplesList,ANY-method	GTuplesList-class
strand<-,GTuplesList,character-method	GTuplesList-class
subsetByOverlaps	findOverlaps-methods
subsetByOverlaps,GTuples,GTuples-method	findOverlaps-methods
tile,GTuples-method	illdefined-methods
trim,GTuples-method	intra-tuple-methods
tuples	GTuples-class
tuples,GTuples-method	GTuples-class
tuples,GTuplesList-method	GTuplesList-class
tuples-squeezers	tuples-squeezers
tuples<-	GTuples-class
tuples<-,GTuples-method	GTuples-class
tuples<-,GTuplesList-method	GTuplesList-class
union,GTuples,GTuples-method	illdefined-methods
updateObject,GTuplesList-method	GTuplesList-class
updateObject,GTupless-method	GTuples-class
width,GTuples-method	GTuples-class
width,GTuplesList-method	GTuplesList-class
width<-,GTuples-method	GTuples-class
width<-,GTuplesList-method	GTuplesList-class
window,GTuples-method	GTuples-class
[,GTuples-method	GTuples-class
[,GTuplesList,ANY-method	GTuplesList-class
[<-,GTuples-method	GTuples-class
[<-,GTuplesList,ANY,ANY,ANY-method	GTuplesList-class
[[<-,GTuplesList,ANY,ANY,ANY-method	GTuplesList-class
