IRanges: Infrastructure for manipulating intervals on sequences

Provides efficient low-level and highly reusable S4 classes for storing, manipulating and aggregating over annotated ranges of integers. Implements an algebra of range operations, including efficient algorithms for finding overlaps and nearest neighbors. Defines efficient list-like classes for storing, transforming and aggregating large grouped data, i.e., collections of atomic vectors and DataFrames.

AuthorH. Pag├Ęs, P. Aboyoun and M. Lawrence
Date of publicationNone
MaintainerBioconductor Package Maintainer <maintainer@bioconductor.org>
LicenseArtistic-2.0
Version2.8.1

View on Bioconductor

Man pages

AtomicList-class: Lists of Atomic Vectors in Natural and Rle Form

AtomicList-utils: Common operations on AtomicList objects

bind-arrays: Bind arrays along their rows or columns

CompressedHitsList-class: CompressedHitsList objects

CompressedList-class: CompressedList objects

coverage-methods: Coverage of a set of ranges

DataFrameList-class: List of DataFrames

DataFrame-utils: Common operations on DataFrame objects

extractList: Group elements of a vector-like object into a list-like...

findOverlaps-methods: Finding overlapping ranges

GappedRanges-class: GappedRanges objects (DEFUNCT!)

Grouping-class: Grouping objects

Hits-class-leftovers: Examples of basic manipulation of Hits objects

inter-range-methods: Inter range transformations of a Ranges, Views, RangesList,...

intra-range-methods: Intra range transformations of a Ranges, Views, RangesList,...

IRanges-class: IRanges and NormalIRanges objects

IRanges-constructor: The IRanges constructor and supporting functions

IRanges-internals: IRanges internals

IRangesList-class: List of IRanges and NormalIRanges

IRanges-utils: IRanges utility functions

List-class-leftovers: List objects (old man page)

MaskCollection-class: MaskCollection objects

multisplit: Split elements belonging to multiple groups

NCList-class: Nested Containment List objects

nearest-methods: Finding the nearest range neighbor

RangedData-class: Data on ranges

RangedDataList-class: Lists of RangedData (DEFUNCT!)

RangedSelection-class: Selection of ranges and columns

Ranges-class: Ranges objects

Ranges-comparison: Comparing and ordering ranges

RangesList-class: List of Ranges

RDApplyParams-class: Applying over spaces (DEFUNCT!)

read.Mask: Read a mask from a file

reverse-methods: reverse

Rle-class-leftovers: Rle objects (old man page)

RleViews-class: The RleViews class

RleViewsList-class: List of RleViews

seqapply: 2 methods that should be documented somewhere else

setops-methods: Set operations on Ranges and RangesList objects

slice-methods: Slice a vector-like or list-like object

Vector-class-leftovers: Vector objects (old man page)

Views-class: Views objects

ViewsList-class: List of Views

view-summarization-methods: Summarize views on a vector-like object with numeric values

Functions

acbind Man page
acbind,array-method Man page
active Man page
active<- Man page
active<-,MaskCollection-method Man page
active,MaskCollection-method Man page
all,CompressedAtomicList-method Man page
all,CompressedRleList-method Man page
any,CompressedAtomicList-method Man page
anyNA,CompressedAtomicList-method Man page
append,MaskCollection,MaskCollection-method Man page
applyFun Man page
applyFun<- Man page
applyFun<-,RDApplyParams-method Man page
applyFun,RDApplyParams-method Man page
applyParams Man page
applyParams<- Man page
applyParams<-,RDApplyParams-method Man page
applyParams,RDApplyParams-method Man page
arbind Man page
arbind,array-method Man page
as.data.frame,GappedRanges-method Man page
as.data.frame,Hits-method Man page
as.data.frame,RangedData-method Man page
as.data.frame,Ranges-method Man page
as.env,RangedData-method Man page
as.env,SDFLWrapperForTransform-method Man page
as.integer,Ranges-method Man page
as.list,CompressedAtomicList-method Man page
as.list,CompressedNormalIRangesList-method Man page
as.list,Hits-method Man page
as.list,SortedByQueryHits-method Man page
as.matrix,AtomicList-method Man page
as.matrix,CompressedHitsList-method Man page
as.matrix,Ranges-method Man page
as.matrix,ViewsList-method Man page
as.matrix,Views-method Man page
asNormalIRanges Man page
as.vector,AtomicList-method Man page
AtomicList Man page
AtomicList-class Man page
AtomicList-utils Man page
bind arrays Man page
bind-arrays Man page
breakInChunks Man page
cbind,DataFrameList-method Man page
c,CompressedList-method Man page
c,GappedRanges-method Man page
CharacterList Man page
CharacterList-class Man page
chartr,ANY,ANY,CompressedCharacterList-method Man page
chartr,ANY,ANY,CompressedRleList-method Man page
chartr,ANY,ANY,SimpleCharacterList-method Man page
chartr,ANY,ANY,SimpleRleList-method Man page
c,IRanges-method Man page
class:AtomicList Man page
class:CharacterList Man page
class:ComplexList Man page
class:CompressedAtomicList Man page
class:CompressedCharacterList Man page
class:CompressedComplexList Man page
class:CompressedFactorList Man page
class:CompressedGrouping Man page
class:CompressedHitsList Man page
class:CompressedIntegerList Man page
class:CompressedIRangesList Man page
class:CompressedList Man page
class:CompressedLogicalList Man page
class:CompressedManyToManyGrouping Man page
class:CompressedManyToOneGrouping Man page
class:CompressedNormalIRangesList Man page
class:CompressedNumericList Man page
class:CompressedRawList Man page
class:CompressedRleList Man page
class:Dups Man page
class:FactorList Man page
class:functionORNULL Man page
class:GappedRanges Man page
class:Grouping Man page
class:GroupingIRanges Man page
class:GroupingRanges Man page
class:H2LGrouping Man page
class:IntegerList Man page
class:IRanges Man page
class:IRangesList Man page
class:LogicalList Man page
class:ManyToManyGrouping Man page
class:ManyToOneGrouping Man page
class:MaskCollection Man page
classNameForDisplay,CompressedList-method Man page
class:NCList Man page
class:NCLists Man page
class:NormalIRanges Man page
class:NormalIRangesList Man page
class:NumericList Man page
class:Partitioning Man page
class:PartitioningByEnd Man page
class:PartitioningByWidth Man page
class:PartitioningMap Man page
class:RangedData Man page
class:Ranges Man page
class:RangesList-class Man page
class:RangesORmissing Man page
class:RawList Man page
class:RleList Man page
class:RleViews Man page
class:SimpleAtomicList Man page
class:SimpleCharacterList Man page
class:SimpleComplexList Man page
class:SimpleFactorList Man page
class:SimpleGrouping Man page
class:SimpleIntegerList Man page
class:SimpleIRangesList Man page
class:SimpleLogicalList Man page
class:SimpleManyToManyGrouping Man page
class:SimpleManyToOneGrouping Man page
class:SimpleNormalIRangesList Man page
class:SimpleNumericList Man page
class:SimpleRangesList-class Man page
class:SimpleRawList Man page
class:SimpleRleList Man page
class:SimpleViewsList Man page
class:Views Man page
class:ViewsList Man page
coerce,ANY,CompressedList-method Man page
coerce,ANY,CompressedSplitDataFrameList-method Man page
coerce,ANY,SimpleSplitDataFrameList-method Man page
coerce,ANY,SplitDataFrameList-method Man page
coerce,ANY,vector-method Man page
coerce,AtomicList,CharacterList-method Man page
coerce,AtomicList,ComplexList-method Man page
coerce,AtomicList,IntegerList-method Man page
coerce,AtomicList,LogicalList-method Man page
coerce,AtomicList,NumericList-method Man page
coerce,AtomicList,RawList-method Man page
coerce,AtomicList,RleList-method Man page
coerce,AtomicList,RleViews Man page
coerce,CompressedAtomicList,list-method Man page
coerce,CompressedIRangesList,CompressedNormalIRangesList-method Man page
coerce,CompressedIRangesList,GappedRanges-method Man page
coerce,CompressedNormalIRangesList,GappedRanges-method Man page
coerce,CompressedRleList,CompressedIRangesList-method Man page
coerce,DataFrame,Grouping-method Man page
coerce,DataFrameList,DataFrame-method Man page
coerce,data.frame,RangedData-method Man page
coerce,DataFrame,SplitDataFrameList-method Man page
coerce,DataTable,RangedData-method Man page
coerce,FactorList,Grouping-method Man page
coerce,GappedRanges,CompressedIRangesList-method Man page
coerce,GappedRanges,CompressedNormalIRangesList-method Man page
coerce,GappedRanges,IRangesList-method Man page
coerce,GappedRanges,NormalIRangesList-method Man page
coerce,GappedRanges,RangesList-method Man page
coerce,grouping,Grouping-method Man page
coerce,grouping,ManyToOneGrouping-method Man page
coerce,Hits,CompressedIntegerList-method Man page
coerce,Hits,DataFrame-method Man page
coerce,Hits,Grouping Man page
coerce,Hits,Grouping-method Man page
coerce,Hits,IntegerList-method Man page
coerce,Hits,List-method Man page
coerce,integer,IRanges-method Man page
coerce,integer,NormalIRanges-method Man page
coerce,IRanges,NormalIRanges-method Man page
coerce,List,CompressedSplitDataFrameList-method Man page
coerce,list,RangesList-method Man page
coerce,List,SimpleSplitDataFrameList-method Man page
coerce,list,SplitDataFrameList-method Man page
coerce,list,SplitDataFrameList-method Man page
coerce,logical,IRanges-method Man page
coerce,LogicalList,CompressedIRangesList-method Man page
coerce,LogicalList,CompressedNormalIRangesList-method Man page
coerce,LogicalList,IRangesList-method Man page
coerce,LogicalList,NormalIRangesList-method Man page
coerce,LogicalList,SimpleIRangesList-method Man page
coerce,LogicalList,SimpleNormalIRangesList-method Man page
coerce,logical,NormalIRanges-method Man page
coerce,ManyToOneGrouping,factor-method Man page
coerce,MaskCollection,NormalIRanges-method Man page
coerce,NCList,IRanges-method Man page
coerce,NCLists,CompressedIRangesList-method Man page
coerce,NCLists,IRangesList-method Man page
coerce,NormalIRangesList,CompressedNormalIRangesList-method Man page
coerce,numeric,IRanges-method Man page
coerce,numeric,NormalIRanges-method Man page
coerce,RangedData,CompressedIRangesList-method Man page
coerce,RangedData,DataFrame-method Man page
coerce,RangedData,IRangesList-method Man page
coerce,RangedData,RangesList-method Man page
coerce,Ranges,IRanges-method Man page
coerce,RangesList,CompressedIRangesList-method Man page
coerce,RangesList,CompressedNormalIRangesList-method Man page
coerce,RangesList,IRangesList-method Man page
coerce,RangesList,NCLists-method Man page
coerce,RangesList,NormalIRangesList-method Man page
coerce,RangesList,RangedData-method Man page
coerce,RangesList,RangedSelection-method Man page
coerce,RangesList,SimpleIRangesList-method Man page
coerce,RangesList,SimpleNormalIRangesList-method Man page
coerce,RangesList,SimpleRangesList-method Man page
coerce,Ranges,NCList-method Man page
coerce,Ranges,PartitioningByEnd-method Man page
coerce,Ranges,PartitioningByWidth-method Man page
coerce,Ranges,RangedData-method Man page
coerce,Ranges,RangesList-method Man page
coerce,Rle,IRanges-method Man page
coerce,RleList,CompressedIRangesList-method Man page
coerce,RleList,CompressedNormalIRangesList-method Man page
coerce,RleList,IRangesList-method Man page
coerce,RleList,NormalIRangesList-method Man page
coerce,RleList,RangedData-method Man page
coerce,RleList,SimpleIRangesList-method Man page
coerce,RleList,SimpleNormalIRangesList-method Man page
coerce,Rle,NormalIRanges-method Man page
coerce,Rle,RangedData-method Man page
coerce,RleViewsList,CompressedIRangesList-method Man page
coerce,RleViewsList,IRangesList-method Man page
coerce,RleViewsList,RangedData-method Man page
coerce,RleViewsList,SimpleIRangesList-method Man page
coerce,SimpleIRangesList,SimpleNormalIRangesList-method Man page
coerce,SimpleList,SplitDataFrameList-method Man page
coerce,SimpleRangesList,SimpleIRangesList-method Man page
coerce,SortedByQueryHits,CompressedIntegerList-method Man page
coerce,SortedByQueryHits,IntegerList-method Man page
coerce,SortedByQueryHits,IRanges-method Man page
coerce,SortedByQueryHits,List-method Man page
coerce,SortedByQueryHits,PartitioningByEnd-method Man page
coerce,SortedByQueryHits,Partitioning-method Man page
coerce,SortedByQueryHits,Ranges-method Man page
coerce,SplitDataFrameList,DataFrame-method Man page
coerce,vector,AtomicList-method Man page
coerce,vector,CompressedCharacterList-method Man page
coerce,vector,CompressedComplexList-method Man page
coerce,vector,CompressedIntegerList-method Man page
coerce,vector,CompressedLogicalList-method Man page
coerce,vector,CompressedNumericList-method Man page
coerce,vector,CompressedRawList-method Man page
coerce,vector,CompressedRleList-method Man page
coerce,vector,Grouping-method Man page
coerce,vector,ManyToManyGrouping-method Man page
coerce,vector,ManyToOneGrouping-method Man page
coerce,vector,SimpleCharacterList-method Man page
coerce,vector,SimpleComplexList-method Man page
coerce,vector,SimpleIntegerList-method Man page
coerce,vector,SimpleLogicalList-method Man page
coerce,vector,SimpleNumericList-method Man page
coerce,vector,SimpleRawList-method Man page
coerce,vector,SimpleRleList-method Man page
coerce,Vector,Views-method Man page
coerce,Views,IRanges-method Man page
coerce,Views,NormalIRanges-method Man page
coerce,Views,Ranges-method Man page
collapse Man page
collapse,MaskCollection-method Man page
colnames<-,CompressedSplitDataFrameList-method Man page
colnames,CompressedSplitDataFrameList-method Man page
colnames,DataFrameList-method Man page
colnames<-,RangedData-method Man page
colnames,RangedData-method Man page
colnames<-,RangedSelection-method Man page
colnames,RangedSelection-method Man page
colnames<-,SimpleDataFrameList-method Man page
colnames,SimpleSplitDataFrameList-method Man page
columnMetadata Man page
columnMetadata<- Man page
columnMetadata<-,CompressedSplitDataFrameList-method Man page
columnMetadata,CompressedSplitDataFrameList-method Man page
columnMetadata<-,RangedData-method Man page
columnMetadata,RangedData-method Man page
columnMetadata<-,SimpleSplitDataFrameList-method Man page
columnMetadata,SimpleSplitDataFrameList-method Man page
Complex,CompressedAtomicList-method Man page
ComplexList Man page
ComplexList-class Man page
Complex,SimpleAtomicList-method Man page
CompressedAtomicList Man page
CompressedAtomicList-class Man page
CompressedCharacterList Man page
CompressedCharacterList-class Man page
CompressedComplexList Man page
CompressedComplexList-class Man page
CompressedFactorList Man page
CompressedFactorList-class Man page
CompressedGrouping-class Man page
CompressedHitsList Man page
CompressedHitsList-class Man page
CompressedIntegerList Man page
CompressedIntegerList-class Man page
CompressedIRangesList Man page
CompressedIRangesList-class Man page
CompressedList Man page
CompressedList-class Man page
!,CompressedList-method Man page
[[<-,CompressedList-method Man page
$<-,CompressedList-method Man page
CompressedLogicalList Man page
CompressedLogicalList-class Man page
CompressedManyToManyGrouping-class Man page
CompressedManyToOneGrouping-class Man page
CompressedNormalIRangesList Man page
CompressedNormalIRangesList-class Man page
CompressedNumericList Man page
CompressedNumericList-class Man page
CompressedRawList Man page
CompressedRawList-class Man page
CompressedRleList Man page
CompressedRleList-class Man page
CompressedSplitDataFrameList-class Man page
[,CompressedSplitDataFrameList-method Man page
cor,AtomicList,AtomicList-method Man page
countOverlaps Man page
countOverlaps,RangedData,RangedData-method Man page
countOverlaps,RangedData,RangesList-method Man page
countOverlaps,RangesList,RangedData-method Man page
countOverlaps,RangesList,RangesList-method Man page
countOverlaps,Ranges,Ranges-method Man page
countOverlaps,Vector,missing-method Man page
countOverlaps,Vector,Vector-method Man page
countOverlaps,Vector,ViewsList-method Man page
countOverlaps,ViewsList,Vector-method Man page
countOverlaps,ViewsList,ViewsList-method Man page
cov,AtomicList,AtomicList-method Man page
coverage Man page
coverage-methods Man page
coverage,RangedData-method Man page
coverage,RangesList-method Man page
coverage,Ranges-method Man page
coverage,Views-method Man page
c,RangedData-method Man page
cummax,CompressedAtomicList-method Man page
cummin,CompressedAtomicList-method Man page
cumprod,CompressedAtomicList-method Man page
cumsum,CompressedAtomicList-method Man page
c,Views-method Man page
DataFrameList Man page
DataFrameList-class Man page
DataFrame-utils Man page
desc Man page
desc<- Man page
desc<-,MaskCollection-method Man page
desc,MaskCollection-method Man page
diff,CompressedIntegerList-method Man page
diff,CompressedNumericList-method Man page
diff,CompressedRleList-method Man page
diff,IntegerList-method Man page
diff,NumericList-method Man page
diff,RleList-method Man page
dim,DataFrameList-method Man page
dimnames<-,DataFrameList-method Man page
dimnames,DataFrameList-method Man page
disjoin Man page
disjoin,CompressedIRangesList-method Man page
disjoin,NormalIRanges-method Man page
disjoin,RangesList-method Man page
disjoin,Ranges-method Man page
disjointBins Man page
disjointBins,NormalIRanges-method Man page
disjointBins,RangesList-method Man page
disjointBins,Ranges-method Man page
distance Man page
distance,Pairs,missing-method Man page
distance,Ranges,Ranges-method Man page
distanceToNearest Man page
distanceToNearest,Ranges,RangesORmissing-method Man page
drop,AtomicList-method Man page
duplicated,CompressedAtomicList-method Man page
duplicated,CompressedList-method Man page
duplicated,Dups-method Man page
Dups Man page
Dups-class Man page
elementNROWS,CompressedList-method Man page
elementNROWS,GappedRanges-method Man page
elementNROWS,NCLists-method Man page
elementNROWS,RangedData-method Man page
elementNROWS,Ranges-method Man page
elementNROWS,Views-method Man page
end<- Man page
end,CompressedIRangesList-method Man page
end,GappedRanges-method Man page
end<-,IRanges-method Man page
end,NCList-method Man page
end,NCLists-method Man page
endoapply,CompressedList-method Man page
endoapply,RangedData-method Man page
end,PartitioningByEnd-method Man page
end,PartitioningByWidth-method Man page
end<-,RangedData-method Man page
end,RangedData-method Man page
end<-,RangesList-method Man page
end,RangesList-method Man page
end,Ranges-method Man page
end,SimpleViewsList-method Man page
end<-,Views-method Man page
end,Views-method Man page
eval Man page
eval,expression,Vector-method Man page
eval,language,Vector-method Man page
extractList Man page
extractList,ANY,ANY-method Man page
extractList,ANY-method Man page
FactorList Man page
FactorList-class Man page
filterRules<- Man page
filterRules<-,RDApplyParams-method Man page
filterRules,RDApplyParams-method Man page
findOverlapPairs Man page
findOverlaps Man page
findOverlaps,ANY,Pairs-method Man page
findOverlaps,integer,Ranges-method Man page
findOverlaps-methods Man page
findOverlaps,Pairs,ANY-method Man page
findOverlaps,Pairs,missing-method Man page
findOverlaps,Pairs,Pairs-method Man page
findOverlaps,RangedData,RangedData-method Man page
findOverlaps,RangedData,RangesList-method Man page
findOverlaps,RangesList,RangedData-method Man page
findOverlaps,RangesList,RangesList-method Man page
findOverlaps,Ranges,Ranges-method Man page
findOverlaps,Vector,missing-method Man page
findOverlaps,Vector,ViewsList-method Man page
findOverlaps,Vector,Views-method Man page
findOverlaps,ViewsList,Vector-method Man page
findOverlaps,ViewsList,ViewsList-method Man page
findOverlaps,Views,Vector-method Man page
findOverlaps,Views,Views-method Man page
findRange Man page
findRange,Rle-method Man page
flank Man page
flank,CompressedIRangesList-method Man page
flank,RangesList-method Man page
flank,Ranges-method Man page
follow Man page
follow,Ranges,RangesORmissing-method Man page
from,CompressedHitsList-method Man page
functionORNULL Man page
functionORNULL-class Man page
GappedRanges Man page
GappedRanges-class Man page
gaps Man page
gaps,CompressedIRangesList-method Man page
gaps,MaskCollection-method Man page
gaps,RangesList-method Man page
gaps,Ranges-method Man page
gaps,Views-method Man page
Grouping Man page
Grouping-class Man page
GroupingIRanges Man page
GroupingIRanges-class Man page
GroupingRanges Man page
GroupingRanges-class Man page
grouplength Man page
grouplengths Man page
grouplengths,CompressedGrouping-method Man page
grouplengths,Grouping-method Man page
grouplengths,GroupingRanges-method Man page
grouplengths,H2LGrouping-method Man page
grouprank Man page
grouprank,H2LGrouping-method Man page
gsub,ANY,ANY,CompressedCharacterList-method Man page
gsub,ANY,ANY,CompressedRleList-method Man page
gsub,ANY,ANY,SimpleCharacterList-method Man page
gsub,ANY,ANY,SimpleRleList-method Man page
H2LGrouping Man page
H2LGrouping-class Man page
high2low Man page
high2low,ANY-method Man page
high2low,H2LGrouping-method Man page
Hits-examples Man page
IntegerList Man page
IntegerList-class Man page
inter-range-methods Man page
intersect Man page
intersect,CompressedAtomicList,CompressedAtomicList-method Man page
intersect,CompressedIRangesList,CompressedIRangesList-method Man page
intersect,Pairs,missing-method Man page
intersect,RangesList,RangesList-method Man page
intersect,Ranges,Ranges-method Man page
intra-range-methods Man page
IQR,AtomicList-method Man page
IRanges Man page
IRanges-class Man page
IRanges-constructor Man page
IRangesList Man page
IRangesList-class Man page
IRanges-utils Man page
isDisjoint Man page
isDisjoint,NormalIRanges-method Man page
isDisjoint,RangesList-method Man page
isDisjoint,Ranges-method Man page
isEmpty,NormalIRanges-method Man page
isEmpty,Ranges-method Man page
is.na,CompressedList-method Man page
isNormal Man page
isNormal,CompressedIRangesList-method Man page
isNormal,IRanges-method Man page
isNormal,NormalIRanges-method Man page
isNormal,RangesList-method Man page
isNormal,Ranges-method Man page
isNormal,SimpleIRangesList-method Man page
iteratorFun Man page
iteratorFun<- Man page
iteratorFun<-,RDApplyParams-method Man page
iteratorFun,RDApplyParams-method Man page
lapply,CompressedAtomicList-method Man page
lapply,CompressedList-method Man page
lapply,RangedData-method Man page
length,CompressedList-method Man page
length,GappedRanges-method Man page
length<-,H2LGrouping-method Man page
length,H2LGrouping-method Man page
length,MaskCollection-method Man page
length,NCList-method Man page
length,NCLists-method Man page
length,PartitioningByEnd-method Man page
length,RangedData-method Man page
length,Ranges-method Man page
length,Views-method Man page
LogicalList Man page
LogicalList-class Man page
low2high Man page
low2high,H2LGrouping-method Man page
mad,AtomicList-method Man page
ManyToManyGrouping Man page
ManyToManyGrouping-class Man page
ManyToOneGrouping Man page
ManyToOneGrouping-class Man page
mapOrder Man page
mapOrder,PartitioningMap-method Man page
Mask Man page
MaskCollection Man page
MaskCollection-class Man page
MaskCollection.show_frame Man page
maskedratio Man page
maskedratio,MaskCollection-method Man page
maskedwidth Man page
maskedwidth,MaskCollection-method Man page
match,CompressedList,vector-method Man page
match,Ranges,Ranges-method Man page
Math2,CompressedAtomicList-method Man page
Math2,SimpleAtomicList-method Man page
Math,CompressedAtomicList-method Man page
Math,SimpleAtomicList-method Man page
max,CompressedNormalIRangesList-method Man page
max,MaskCollection-method Man page
max,NormalIRanges-method Man page
max,SimpleNormalIRangesList-method Man page
max,Views-method Man page
mean,AtomicList-method Man page
mean,CompressedIntegerList-method Man page
mean,CompressedLogicalList-method Man page
mean,CompressedNumericList-method Man page
mean,CompressedRleList-method Man page
mean,Views-method Man page
median,AtomicList-method Man page
median,CompressedAtomicList-method Man page
members Man page
members,H2LGrouping-method Man page
members,ManyToOneGrouping-method Man page
mendoapply,CompressedList-method Man page
mergeByOverlaps Man page
merge,missing,RangesList-method Man page
merge,RangesList,missing-method Man page
merge,RangesList,RangesList-method Man page
mid Man page
mid,Ranges-method Man page
min,CompressedNormalIRangesList-method Man page
min,MaskCollection-method Man page
min,NormalIRanges-method Man page
min,SimpleNormalIRangesList-method Man page
min,Views-method Man page
mstack Man page
mstack,DataFrame-method Man page
mstack,vector-method Man page
mstack,Vector-method Man page
multisplit Man page
names<-,CompressedList-method Man page
names,CompressedList-method Man page
names<-,GappedRanges-method Man page
names,GappedRanges-method Man page
names<-,IRanges-method Man page
names,IRanges-method Man page
names<-,MaskCollection-method Man page
names,MaskCollection-method Man page
names,NCList-method Man page
names,NCLists-method Man page
names<-,Partitioning-method Man page
names,Partitioning-method Man page
names<-,RangedData-method Man page
names,RangedData-method Man page
names<-,Views-method Man page
names,Views-method Man page
narrow Man page
narrow,CompressedIRangesList-method Man page
narrow,MaskCollection-method Man page
narrow,RangesList-method Man page
narrow,Ranges-method Man page
narrow,Views-method Man page
nchar,CompressedCharacterList-method Man page
nchar,CompressedRleList-method Man page
nchar,SimpleCharacterList-method Man page
nchar,SimpleRleList-method Man page
NCList Man page
NCList-class Man page
NCLists Man page
NCLists-class Man page
ncol,CompressedSplitDataFrameList-method Man page
ncol,DataFrameList-method Man page
ncol,RangedData-method Man page
ncol,SimpleSplitDataFrameList-method Man page
nearest Man page
nearest-methods Man page
nearest,Ranges,RangesORmissing-method Man page
ngap Man page
ngap,GappedRanges-method Man page
nir_list Man page
nir_list,MaskCollection-method Man page
nLnode,CompressedHitsList-method Man page
nobj Man page
nobj,BaseManyToManyGrouping-method Man page
nobj,CompressedManyToOneGrouping-method Man page
nobj,H2LGrouping-method Man page
nobj,ManyToManyGrouping-method Man page
nobj,ManyToOneGrouping-method Man page
nobj,PartitioningByEnd-method Man page
NormalIRanges Man page
NormalIRanges-class Man page
NormalIRangesList Man page
NormalIRangesList-class Man page
nRnode,CompressedHitsList-method Man page
nrow,DataFrameList-method Man page
nrow,RangedData-method Man page
NumericList Man page
NumericList-class Man page
Ops,atomic,AtomicList-method Man page
Ops,atomic,CompressedAtomicList-method Man page
Ops,AtomicList,atomic-method Man page
Ops,atomic,SimpleAtomicList-method Man page
Ops,CompressedAtomicList,atomic-method Man page
Ops,CompressedAtomicList,CompressedAtomicList-method Man page
Ops,CompressedAtomicList,SimpleAtomicList-method Man page
Ops,CompressedIRangesList,numeric-method Man page
Ops,Ranges,ANY-method Man page
Ops,RangesList,numeric-method Man page
Ops,Ranges,numeric-method Man page
Ops,SimpleAtomicList,atomic-method Man page
Ops,SimpleAtomicList,CompressedAtomicList-method Man page
Ops,SimpleAtomicList,SimpleAtomicList-method Man page
order,CompressedAtomicList-method Man page
order,List-method Man page
order,Ranges-method Man page
\%outside\% Man page
\%over\% Man page
overlapsAny Man page
overlapsAny,RangedData,RangedData-method Man page
overlapsAny,RangedData,RangesList-method Man page
overlapsAny,RangesList,RangedData-method Man page
overlapsAny,RangesList,RangesList-method Man page
overlapsAny,Vector,missing-method Man page
overlapsAny,Vector,Vector-method Man page
overlapsAny,Vector,ViewsList-method Man page
overlapsAny,ViewsList,Vector-method Man page
overlapsAny,ViewsList,ViewsList-method Man page
Partitioning Man page
PartitioningByEnd Man page
PartitioningByEnd-class Man page
PartitioningByWidth Man page
PartitioningByWidth-class Man page
Partitioning-class Man page
PartitioningMap Man page
PartitioningMap-class Man page
paste,CompressedAtomicList-method Man page
pcompare Man page
pcompare,Ranges,Ranges-method Man page
pgap Man page
pgap,Ranges,Ranges-method Man page
pintersect Man page
pintersect,Pairs,missing-method Man page
pintersect,Ranges,Ranges-method Man page
pmax,IntegerList-method Man page
pmax.int,IntegerList-method Man page
pmax.int,NumericList-method Man page
pmax.int,RleList-method Man page
pmax,NumericList-method Man page
pmax,RleList-method Man page
pmin,IntegerList-method Man page
pmin.int,IntegerList-method Man page
pmin.int,NumericList-method Man page
pmin.int,RleList-method Man page
pmin,NumericList-method Man page
pmin,RleList-method Man page
poverlaps Man page
poverlaps,integer,Ranges-method Man page
poverlaps,Ranges,integer-method Man page
poverlaps,Ranges,Ranges-method Man page
precede Man page
precede,Ranges,RangesORmissing-method Man page
promoters Man page
promoters,CompressedIRangesList-method Man page
promoters,RangesList-method Man page
promoters,Ranges-method Man page
promoters,Views-method Man page
psetdiff Man page
psetdiff,Pairs,missing-method Man page
psetdiff,Ranges,Ranges-method Man page
punion Man page
punion,Pairs,missing-method Man page
punion,Ranges,Ranges-method Man page
quantile,AtomicList-method Man page
range Man page
rangeComparisonCodeToLetter Man page
range,CompressedIntegerList-method Man page
range,CompressedIRangesList-method Man page
range,CompressedLogicalList-method Man page
range,CompressedNumericList-method Man page
rangedData Man page
rangedData<- Man page
RangedData Man page
RangedData-class Man page
RangedDataList Man page
RangedDataList-class Man page
[,RangedData-method Man page
[[<-,RangedData-method Man page
[[,RangedData-method Man page
$<-,RangedData-method Man page
rangedData<-,RDApplyParams-method Man page
rangedData,RDApplyParams-method Man page
RangedSelection Man page
RangedSelection-class Man page
range,RangedData-method Man page
range,RangesList-method Man page
range,Ranges-method Man page
ranges Man page
ranges<- Man page
Ranges Man page
Ranges-class Man page
Ranges-comparison Man page
ranges,CompressedRleList-method Man page
ranges,HitsList-method Man page
ranges,Hits-method Man page
RangesList Man page
RangesList-class Man page
ranges,NCList-method Man page
ranges,NCLists-method Man page
RangesORmissing Man page
RangesORmissing-class Man page
ranges<-,RangedData-method Man page
ranges,RangedData-method Man page
ranges<-,RangedSelection-method Man page
ranges,RangedSelection-method Man page
ranges,RleList-method Man page
ranges,Rle-method Man page
ranges,SimpleViewsList-method Man page
ranges<-,Views-method Man page
ranges,Views-method Man page
rank,CompressedAtomicList-method Man page
rank,List-method Man page
RawList Man page
RawList-class Man page
rbind,DataFrameList-method Man page
rbind,RangedData-method Man page
rdapply Man page
RDApplyParams Man page
RDApplyParams-class Man page
rdapply,RDApplyParams-method Man page
read.agpMask Man page
read.gapMask Man page
read.liftMask Man page
read.Mask Man page
read.rmMask Man page
read.trfMask Man page
reduce Man page
reduce,CompressedIRangesList-method Man page
reduce,RangedData-method Man page
reduce,RangesList-method Man page
reduce,Ranges-method Man page
reducerFun Man page
reducerFun<- Man page
reducerFun<-,RDApplyParams-method Man page
reducerFun,RDApplyParams-method Man page
reducerParams Man page
reducerParams<- Man page
reducerParams<-,RDApplyParams-method Man page
reducerParams,RDApplyParams-method Man page
reduce,Views-method Man page
reflect Man page
reflect,Ranges-method Man page
regroup Man page
relist,ANY,List-method Man page
relist,ANY,PartitioningByEnd-method Man page
relist,ANY,PartitioningByEnd-method Man page
relistToClass,data.frame-method Man page
relistToClass,DataFrame-method Man page
relist,Vector,list-method Man page
rep.int,Vector-method Man page
rep,Vector-method Man page
resize Man page
resize,CompressedIRangesList-method Man page
resize,IntervalList-method Man page
resize,RangesList-method Man page
resize,Ranges-method Man page
restrict Man page
restrict,CompressedIRangesList-method Man page
restrict,RangesList-method Man page
restrict,Ranges-method Man page
revElements,CompressedList-method Man page
reverse Man page
reverse,character-method Man page
reverse,IRanges-method Man page
reverse,MaskCollection-method Man page
reverse,NormalIRanges-method Man page
reverse,Views-method Man page
rev,Vector-method Man page
RleList Man page
RleList,AtomicList,RleList-method Man page
RleList-class Man page
RleViews Man page
RleViews-class Man page
RleViewsList Man page
RleViewsList-class Man page
rownames<-,CompressedSplitDataFrameList-method Man page
rownames,DataFrameList-method Man page
rownames<-,RangedData-method Man page
rownames,RangedData-method Man page
rownames<-,SimpleDataFrameList-method Man page
runLength,CompressedRleList-method Man page
runLength,RleList-method Man page
runmean,RleList-method Man page
runmed,CompressedIntegerList-method Man page
runmed,NumericList-method Man page
runmed,RleList-method Man page
runmed,SimpleIntegerList-method Man page
runq,RleList-method Man page
runsum,RleList-method Man page
runValue<-,CompressedRleList-method Man page
runValue,CompressedRleList-method Man page
runValue,RleList-method Man page
runValue<-,SimpleRleList-method Man page
runwtsum,RleList-method Man page
score<-,RangedData-method Man page
score,RangedData-method Man page
sd,AtomicList-method Man page
[[<-,SDFLWrapperForTransform-method Man page
[[,SDFLWrapperForTransform-method Man page
selectNearest Man page
selfmatch,CompressedAtomicList-method Man page
selfmatch,Ranges-method Man page
setdiff Man page
setdiff,CompressedIRangesList,CompressedIRangesList-method Man page
setdiff,Pairs,missing-method Man page
setdiff,RangesList,RangesList-method Man page
setdiff,Ranges,Ranges-method Man page
setops-methods Man page
shift Man page
shift,CompressedIRangesList-method Man page
shift,RangesList-method Man page
shift,Ranges-method Man page
shift,Views-method Man page
showAsCell,RangesList-method Man page
showAsCell,Ranges-method Man page
show,AtomicList-method Man page
show,Dups-method Man page
show,GappedRanges-method Man page
show,Grouping-method Man page
show,MaskCollection-method Man page
show,PartitioningMap-method Man page
show,RangedData-method Man page
show,RangesList-method Man page
show,Ranges-method Man page
show,RleList-method Man page
show,RleViews-method Man page
show,SplitDataFrameList-method Man page
SimpleAtomicList Man page
SimpleAtomicList-class Man page
SimpleCharacterList Man page
SimpleCharacterList-class Man page
SimpleComplexList Man page
SimpleComplexList-class Man page
SimpleDataFrameList-class Man page
SimpleFactorList Man page
SimpleFactorList-class Man page
SimpleGrouping-class Man page
SimpleIntegerList Man page
SimpleIntegerList-class Man page
SimpleIRangesList Man page
SimpleIRangesList-class Man page
SimpleLogicalList Man page
SimpleLogicalList-class Man page
SimpleManyToManyGrouping-class Man page
SimpleManyToOneGrouping-class Man page
SimpleNormalIRangesList Man page
SimpleNormalIRangesList-class Man page
SimpleNumericList Man page
SimpleNumericList-class Man page
SimpleRangesList Man page
SimpleRangesList-class Man page
SimpleRawList Man page
SimpleRawList-class Man page
SimpleRleList Man page
SimpleRleList-class Man page
SimpleRleViewsList-class Man page
SimpleSplitDataFrameList-class Man page
[,SimpleSplitDataFrameList-method Man page
SimpleViewsList Man page
SimpleViewsList-class Man page
simplify Man page
simplify<- Man page
simplify<-,RDApplyParams-method Man page
simplify,RDApplyParams-method Man page
slice Man page
slice,ANY-method Man page
slice-methods Man page
slice,RleList-method Man page
slice,Rle-method Man page
slidingWindows Man page
slidingWindows,Ranges-method Man page
smoothEnds,CompressedIntegerList-method Man page
smoothEnds,NumericList-method Man page
smoothEnds,RleList-method Man page
smoothEnds,SimpleIntegerList-method Man page
solveUserSEW Man page
solveUserSEW0 Man page
sort,List-method Man page
space Man page
space,CompressedHitsList-method Man page
space,RangedData-method Man page
space,RangesList-method Man page
splitAsList Man page
splitAsList,ANY,ANY Man page
SplitDataFrameList Man page
SplitDataFrameList-class Man page
[<-,SplitDataFrameList-method Man page
split,RangedData,ANY-method Man page
splitRanges Man page
splitRanges,Rle-method Man page
splitRanges,vectorORfactor-method Man page
split<-,Vector-method Man page
stack,DataFrameList-method Man page
stack,List-method Man page
stack,RangedDataList-method Man page
start<- Man page
start,CompressedIRangesList-method Man page
start,GappedRanges-method Man page
start<-,IRanges-method Man page
start,IRanges-method Man page
start,NCList-method Man page
start,NCLists-method Man page
start,PartitioningByEnd-method Man page
start,PartitioningByWidth-method Man page
start<-,RangedData-method Man page
start,RangedData-method Man page
start<-,RangesList-method Man page
start,RangesList-method Man page
start,Ranges-method Man page
start,SimpleViewsList-method Man page
start<-,Views-method Man page
start,Views-method Man page
sub,ANY,ANY,CompressedCharacterList-method Man page
sub,ANY,ANY,CompressedRleList-method Man page
sub,ANY,ANY,SimpleCharacterList-method Man page
sub,ANY,ANY,SimpleRleList-method Man page
subject Man page
subject,SimpleRleViewsList-method Man page
subject,Views-method Man page
subsetByOverlaps Man page
subsetByOverlaps,RangedData,RangedData-method Man page
subsetByOverlaps,RangedData,RangesList-method Man page
subsetByOverlaps,RangesList,RangedData-method Man page
subsetByOverlaps,Vector,Vector-method Man page
subset,Vector-method Man page
subviews Man page
subviews,Views-method Man page
successiveIRanges Man page
successiveViews Man page
sum,CompressedIntegerList-method Man page
sum,CompressedLogicalList-method Man page
sum,CompressedNumericList-method Man page
Summary,AtomicList-method Man page
summary,CompressedIRangesList-method Man page
Summary,CompressedRleList-method Man page
Summary,Views-method Man page
sum,Views-method Man page
table,AtomicList-method Man page
tapply,ANY,Vector-method Man page
tapply,Vector,ANY-method Man page
tapply,Vector,Vector-method Man page
threebands Man page
threebands,IRanges-method Man page
tile Man page
tile,Ranges-method Man page
to,CompressedHitsList-method Man page
togroup Man page
togroup,ANY-method Man page
togroup,H2LGrouping-method Man page
togrouplength Man page
togrouplength,ManyToOneGrouping-method Man page
togroup,ManyToOneGrouping-method Man page
togroup,Partitioning-method Man page
togrouprank Man page
togrouprank,H2LGrouping-method Man page
tolower,CompressedCharacterList-method Man page
tolower,CompressedRleList-method Man page
tolower,SimpleCharacterList-method Man page
tolower,SimpleRleList-method Man page
toupper,CompressedCharacterList-method Man page
toupper,CompressedRleList-method Man page
toupper,SimpleCharacterList-method Man page
toupper,SimpleRleList-method Man page
transform,SplitDataFrameList-method Man page
trim Man page
trim,Views-method Man page
union Man page
union,CompressedIRangesList,CompressedIRangesList-method Man page
union,Pairs,missing-method Man page
union,RangesList,RangesList-method Man page
union,Ranges,Ranges-method Man page
unique,CompressedList-method Man page
unique,RleList-method Man page
universe Man page
universe<- Man page
universe<-,RangedData-method Man page
universe,RangedData-method Man page
universe<-,RangesList-method Man page
universe,RangesList-method Man page
universe<-,ViewsList-method Man page
universe,ViewsList-method Man page
unlist,CompressedList-method Man page
unlist,IRangesList-method Man page
unlist,RangedDataList-method Man page
unlist,Ranges-method Man page
unlist,SimpleFactorList-method Man page
unlist,SimpleNormalIRangesList-method Man page
unlist,SimpleRleList-method Man page
unsplit,List-method Man page
unstrsplit,CharacterList-method Man page
unstrsplit,RleList-method Man page
update,IRanges-method Man page
update,Ranges-method Man page
values<-,RangedData-method Man page
values,RangedData-method Man page
var,AtomicList,AtomicList-method Man page
var,AtomicList,missing-method Man page
viewApply Man page
viewApply,RleViewsList-method Man page
viewApply,RleViews-method Man page
viewApply,Views-method Man page
viewMaxs Man page
viewMaxs,RleViewsList-method Man page
viewMaxs,RleViews-method Man page
viewMeans Man page
viewMeans,RleViewsList-method Man page
viewMeans,RleViews-method Man page
viewMins Man page
viewMins,RleViewsList-method Man page
viewMins,RleViews-method Man page
viewRangeMaxs Man page
viewRangeMaxs,RleViewsList-method Man page
viewRangeMaxs,RleViews-method Man page
viewRangeMins Man page
viewRangeMins,RleViewsList-method Man page
viewRangeMins,RleViews-method Man page
Views Man page
Views-class Man page
ViewsList Man page
ViewsList-class Man page
Views,RleList-method Man page
Views,Rle-method Man page
view-summarization-methods Man page
viewSums Man page
viewSums,RleViewsList-method Man page
viewSums,RleViews-method Man page
viewWhichMaxs Man page
viewWhichMaxs,RleViewsList-method Man page
viewWhichMaxs,RleViews-method Man page
viewWhichMins Man page
viewWhichMins,RleViewsList-method Man page
viewWhichMins,RleViews-method Man page
vmembers Man page
vmembers,H2LGrouping-method Man page
vmembers,ManyToOneGrouping-method Man page
whichAsIRanges Man page
which,CompressedLogicalList-method Man page
which,CompressedRleList-method Man page
whichFirstNotNormal Man page
whichFirstNotNormal,RangesList-method Man page
whichFirstNotNormal,Ranges-method Man page
which.max,CompressedRleList-method Man page
which.max,IntegerList-method Man page
which.max,NumericList-method Man page
which.max,RleList-method Man page
which.max,Views-method Man page
which.min,CompressedRleList-method Man page
which.min,IntegerList-method Man page
which.min,NumericList-method Man page
which.min,RleList-method Man page
which.min,Views-method Man page
which,SimpleLogicalList-method Man page
which,SimpleRleList-method Man page
width Man page
width<- Man page
width,CompressedIRangesList-method Man page
width<-,IRanges-method Man page
width,IRanges-method Man page
width,MaskCollection-method Man page
width,NCList-method Man page
width,NCLists-method Man page
width,PartitioningByEnd-method Man page
width,PartitioningByWidth-method Man page
width<-,RangedData-method Man page
width,RangedData-method Man page
width<-,RangesList-method Man page
width,RangesList-method Man page
width,Ranges-method Man page
width,SimpleViewsList-method Man page
width<-,Views-method Man page
width,Views-method Man page
window<-.factor Man page
window<-,factor-method Man page
window<-.vector Man page
window<-.Vector Man page
window<-,vector-method Man page
window<-,Vector-method Man page
\%within\% Man page
within,RangedData-method Man page
with,Vector-method Man page

Files

IRanges/DESCRIPTION
IRanges/NAMESPACE
IRanges/NEWS
IRanges/R
IRanges/R/AtomicList-class.R IRanges/R/AtomicList-impl.R IRanges/R/AtomicList-utils.R IRanges/R/CompressedHitsList-class.R IRanges/R/CompressedList-class.R IRanges/R/CompressedList-comparison.R IRanges/R/DataFrame-utils.R IRanges/R/DataFrameList-class.R IRanges/R/DataFrameList-utils.R IRanges/R/GappedRanges-class.R IRanges/R/Grouping-class.R IRanges/R/Hits-class-leftovers.R IRanges/R/IRanges-class.R IRanges/R/IRanges-constructor.R IRanges/R/IRanges-utils.R IRanges/R/List-class-leftovers.R IRanges/R/ListGrouping-class.R IRanges/R/MaskCollection-class.R IRanges/R/NCList-class.R IRanges/R/RDApplyParams-class.R IRanges/R/RangedData-class.R IRanges/R/RangedData-utils.R IRanges/R/RangedSelection-class.R IRanges/R/Ranges-class.R IRanges/R/Ranges-comparison.R IRanges/R/RangesList-class.R IRanges/R/Rle-class-leftovers.R IRanges/R/RleViews-class.R IRanges/R/RleViews-utils.R IRanges/R/RleViewsList-class.R IRanges/R/RleViewsList-utils.R IRanges/R/Vector-class-leftovers.R IRanges/R/Views-class.R IRanges/R/ViewsList-class.R IRanges/R/bind-arrays.R IRanges/R/cbind-Rle-methods.R IRanges/R/coverage-methods.R IRanges/R/extractList.R IRanges/R/findOverlaps-methods.R IRanges/R/inter-range-methods.R IRanges/R/intra-range-methods.R IRanges/R/multisplit.R IRanges/R/nearest-methods.R IRanges/R/read.Mask.R IRanges/R/reverse-methods.R IRanges/R/seqapply.R IRanges/R/setops-methods.R IRanges/R/slice-methods.R IRanges/R/subsetting-utils.R IRanges/R/tile-methods.R IRanges/R/zzz.R
IRanges/TODO
IRanges/build
IRanges/build/vignette.rds
IRanges/inst
IRanges/inst/CITATION
IRanges/inst/doc
IRanges/inst/doc/IRangesOverview.R
IRanges/inst/doc/IRangesOverview.Rnw
IRanges/inst/doc/IRangesOverview.pdf
IRanges/inst/extdata
IRanges/inst/extdata/ce2chrM.bed
IRanges/inst/extdata/ce2chrM.fa.out
IRanges/inst/extdata/hg18liftAll.lft
IRanges/inst/extdata/hs_b36v3_chrY.agp
IRanges/inst/include
IRanges/inst/include/IRanges_defines.h
IRanges/inst/include/IRanges_interface.h
IRanges/inst/include/_IRanges_stubs.c
IRanges/inst/unitTests
IRanges/inst/unitTests/test_AtomicList-class.R
IRanges/inst/unitTests/test_AtomicList-utils.R
IRanges/inst/unitTests/test_DataFrame-utils.R
IRanges/inst/unitTests/test_DataFrameList.R
IRanges/inst/unitTests/test_Grouping-class.R
IRanges/inst/unitTests/test_HitsList.R
IRanges/inst/unitTests/test_IRanges-class.R
IRanges/inst/unitTests/test_NCList-class.R
IRanges/inst/unitTests/test_Ranges-comparison.R
IRanges/inst/unitTests/test_RangesList-class.R
IRanges/inst/unitTests/test_RleViews.R
IRanges/inst/unitTests/test_RleViewsList.R
IRanges/inst/unitTests/test_bind-arrays.R
IRanges/inst/unitTests/test_coverage-methods.R
IRanges/inst/unitTests/test_extractList.R
IRanges/inst/unitTests/test_findOverlaps-methods.R
IRanges/inst/unitTests/test_inter-range-methods.R
IRanges/inst/unitTests/test_intra-range-methods.R
IRanges/inst/unitTests/test_nearest-methods.R
IRanges/inst/unitTests/test_seqapply.R
IRanges/inst/unitTests/test_setops-methods.R
IRanges/inst/unitTests/test_tile-methods.R
IRanges/man
IRanges/man/AtomicList-class.Rd IRanges/man/AtomicList-utils.Rd IRanges/man/CompressedHitsList-class.Rd IRanges/man/CompressedList-class.Rd IRanges/man/DataFrame-utils.Rd IRanges/man/DataFrameList-class.Rd IRanges/man/GappedRanges-class.Rd IRanges/man/Grouping-class.Rd IRanges/man/Hits-class-leftovers.Rd IRanges/man/IRanges-class.Rd IRanges/man/IRanges-constructor.Rd IRanges/man/IRanges-internals.Rd IRanges/man/IRanges-utils.Rd IRanges/man/IRangesList-class.Rd IRanges/man/List-class-leftovers.Rd IRanges/man/MaskCollection-class.Rd IRanges/man/NCList-class.Rd IRanges/man/RDApplyParams-class.Rd IRanges/man/RangedData-class.Rd IRanges/man/RangedDataList-class.Rd IRanges/man/RangedSelection-class.Rd IRanges/man/Ranges-class.Rd IRanges/man/Ranges-comparison.Rd IRanges/man/RangesList-class.Rd IRanges/man/Rle-class-leftovers.Rd IRanges/man/RleViews-class.Rd IRanges/man/RleViewsList-class.Rd IRanges/man/Vector-class-leftovers.Rd IRanges/man/Views-class.Rd IRanges/man/ViewsList-class.Rd IRanges/man/bind-arrays.Rd IRanges/man/coverage-methods.Rd IRanges/man/extractList.Rd IRanges/man/findOverlaps-methods.Rd IRanges/man/inter-range-methods.Rd IRanges/man/intra-range-methods.Rd IRanges/man/multisplit.Rd IRanges/man/nearest-methods.Rd IRanges/man/read.Mask.Rd IRanges/man/reverse-methods.Rd IRanges/man/seqapply.Rd IRanges/man/setops-methods.Rd IRanges/man/slice-methods.Rd IRanges/man/view-summarization-methods.Rd
IRanges/src
IRanges/src/CompressedAtomicList_utils.c
IRanges/src/CompressedIRangesList_class.c
IRanges/src/CompressedList_class.c
IRanges/src/Grouping_class.c
IRanges/src/IRanges.h
IRanges/src/IRanges_class.c
IRanges/src/IRanges_constructor.c
IRanges/src/NCList.c
IRanges/src/R_init_IRanges.c
IRanges/src/Ranges_class.c
IRanges/src/Ranges_comparison.c
IRanges/src/RleViews_utils.c
IRanges/src/S4Vectors_stubs.c
IRanges/src/SimpleRangesList_class.c
IRanges/src/coverage_methods.c
IRanges/src/inter_range_methods.c
IRanges/tests
IRanges/tests/run_unitTests.R
IRanges/vignettes
IRanges/vignettes/IRangesOverview.Rnw

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

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

All documentation is copyright its authors; we didn't write any of that.