A B C D E F G H I L M N O P Q R S T U V W X misc
!-method | Lists of Atomic Vectors in Natural and Rle Form |
!-method | Rle objects |
!= | Ranges comparison |
!=-method | Ranges comparison |
!=-method | Sequence objects |
!=-method | The XIntegerViews class |
$-method | Sequence objects |
$<--method | Data on ranges |
$<--method | Simple and Compressed List Classes |
%in%-method | Lists of Atomic Vectors in Natural and Rle Form |
%in%-method | Interval Search Trees |
%in%-method | Rle objects |
< | Ranges comparison |
<-method | Ranges comparison |
<= | Ranges comparison |
<=-method | Ranges comparison |
== | Ranges comparison |
==-method | Ranges comparison |
==-method | The XIntegerViews class |
==-method | XVector objects |
> | Ranges comparison |
>-method | Ranges comparison |
>= | Ranges comparison |
>=-method | Ranges comparison |
active | MaskCollection objects |
active-method | Collection of Filter Rules |
active-method | MaskCollection objects |
active<- | MaskCollection objects |
active<--method | Collection of Filter Rules |
active<--method | MaskCollection objects |
aggregate-method | DataTable objects |
aggregate-method | Rle objects |
aggregate-method | Sequence objects |
aggregate-method | Simple and Compressed List Classes |
Annotated | Annotated class |
Annotated-class | Annotated class |
append-method | Collection of Filter Rules |
append-method | MaskCollection objects |
append-method | Sequence objects |
applyFun | Applying over spaces |
applyFun-method | Applying over spaces |
applyFun<- | Applying over spaces |
applyFun<--method | Applying over spaces |
applyParams | Applying over spaces |
applyParams-method | Applying over spaces |
applyParams<- | Applying over spaces |
applyParams<--method | Applying over spaces |
as.character-method | Lists of Atomic Vectors in Natural and Rle Form |
as.character-method | Rle objects |
as.complex-method | Lists of Atomic Vectors in Natural and Rle Form |
as.complex-method | Rle objects |
as.data.frame-method | Lists of Atomic Vectors in Natural and Rle Form |
as.data.frame-method | External Data Frame |
as.data.frame-method | List of DataFrames |
as.data.frame-method | GappedRanges objects |
as.data.frame-method | Data on ranges |
as.data.frame-method | Ranges objects |
as.data.frame-method | List of Ranges |
as.data.frame-method | Rle objects |
as.data.frame-method | XVectorList objects |
as.env | Sequence objects |
as.env-method | DataTable objects |
as.env-method | Data on ranges |
as.env-method | Sequence objects |
as.factor-method | Lists of Atomic Vectors in Natural and Rle Form |
as.factor-method | Rle objects |
as.integer-method | Lists of Atomic Vectors in Natural and Rle Form |
as.integer-method | Ranges objects |
as.integer-method | Rle objects |
as.integer-method | XVector objects |
as.list-method | Lists of Atomic Vectors in Natural and Rle Form |
as.list-method | List of IRanges and NormalIRanges |
as.list-method | Sequence objects |
as.list-method | Simple and Compressed List Classes |
as.logical-method | Lists of Atomic Vectors in Natural and Rle Form |
as.logical-method | Rle objects |
as.matrix-method | Ranges objects |
as.matrix-method | Matchings between Ranges |
as.matrix-method | List of Matchings between Ranges |
as.numeric-method | Lists of Atomic Vectors in Natural and Rle Form |
as.numeric-method | Rle objects |
as.numeric-method | XVector objects |
as.raw-method | Lists of Atomic Vectors in Natural and Rle Form |
as.raw-method | Rle objects |
as.raw-method | XVector objects |
as.table-method | Matchings between Ranges |
as.table-method | List of Matchings between Ranges |
as.vector-method | Lists of Atomic Vectors in Natural and Rle Form |
as.vector-method | Rle objects |
as.vector-method | XVector objects |
asNormalIRanges | IRanges utility functions |
AtomicList-class | Lists of Atomic Vectors in Natural and Rle Form |
Binning | Grouping objects |
Binning-class | Grouping objects |
by-method | DataTable objects |
c-method | Collection of Filter Rules |
c-method | GappedRanges objects |
c-method | IRanges and NormalIRanges objects |
c-method | Data on ranges |
c-method | Rle objects |
c-method | Sequence objects |
c-method | Simple and Compressed List Classes |
c-method | XVector objects |
c-method | XVectorList objects |
cbind | DataTable objects |
cbind-method | External Data Frame |
cbind-method | List of DataFrames |
cbind-method | DataTable objects |
CharacterList | Lists of Atomic Vectors in Natural and Rle Form |
CharacterList-class | Lists of Atomic Vectors in Natural and Rle Form |
chartr-method | Lists of Atomic Vectors in Natural and Rle Form |
chartr-method | Rle objects |
class:Binning | Grouping objects |
class:CompressedIRangesList | List of IRanges and NormalIRanges |
class:CompressedNormalIRangesList | List of IRanges and NormalIRanges |
class:DataTable | DataTable objects |
class:Dups | Grouping objects |
class:GappedRanges | GappedRanges objects |
class:GroupedIRanges | XVectorList objects |
class:Grouping | Grouping objects |
class:H2LGrouping | Grouping objects |
class:IRanges | IRanges and NormalIRanges objects |
class:IRangesList | List of IRanges and NormalIRanges |
class:MaskCollection | MaskCollection objects |
class:NormalIRanges | IRanges and NormalIRanges objects |
class:NormalIRangesList | List of IRanges and NormalIRanges |
class:Partitioning | Grouping objects |
class:PartitioningByEnd | Grouping objects |
class:PartitioningByWidth | Grouping objects |
class:Ranges | Ranges objects |
class:RangesList-class | List of Ranges |
class:Rle | Rle objects |
class:RleViews | The RleViews class |
class:Sequence | Sequence objects |
class:SimpleIRangesList | List of IRanges and NormalIRanges |
class:SimpleNormalIRangesList | List of IRanges and NormalIRanges |
class:SimpleRangesList-class | List of Ranges |
class:Views | Views objects |
class:XDouble | XVector objects |
class:XInteger | XVector objects |
class:XIntegerViews | The XIntegerViews class |
class:XRaw | XVector objects |
class:XRawList | XVectorList objects |
class:XVector | XVector objects |
class:XVectorList | XVectorList objects |
coerce-method | Lists of Atomic Vectors in Natural and Rle Form |
coerce-method | External Data Frame |
coerce-method | List of DataFrames |
coerce-method | GappedRanges objects |
coerce-method | Grouping objects |
coerce-method | IRanges and NormalIRanges objects |
coerce-method | IRanges utility functions |
coerce-method | List of IRanges and NormalIRanges |
coerce-method | Interval Search Trees |
coerce-method | MaskCollection objects |
coerce-method | Data on ranges |
coerce-method | Selection of ranges and columns |
coerce-method | List of Ranges |
coerce-method | Rle objects |
coerce-method | List of RleViews |
coerce-method | Sequence objects |
coerce-method | Views objects |
coerce-method | XVector objects |
collapse | MaskCollection objects |
collapse-method | MaskCollection objects |
colnames-method | External Data Frame |
colnames-method | List of DataFrames |
colnames-method | Data on ranges |
colnames-method | Selection of ranges and columns |
colnames<--method | External Data Frame |
colnames<--method | List of DataFrames |
colnames<--method | Data on ranges |
colnames<--method | Selection of ranges and columns |
columnMetadata | List of DataFrames |
columnMetadata-method | List of DataFrames |
columnMetadata-method | Data on ranges |
columnMetadata<- | List of DataFrames |
columnMetadata<--method | List of DataFrames |
columnMetadata<--method | Data on ranges |
complete.cases-method | DataTable objects |
Complex-method | Lists of Atomic Vectors in Natural and Rle Form |
Complex-method | Rle objects |
ComplexList | Lists of Atomic Vectors in Natural and Rle Form |
ComplexList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedAtomicList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedCharacterList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedCharacterList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedComplexList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedComplexList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedIntegerList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedIntegerList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedIRangesList | List of IRanges and NormalIRanges |
CompressedIRangesList-class | List of IRanges and NormalIRanges |
CompressedList | Simple and Compressed List Classes |
CompressedList-class | Simple and Compressed List Classes |
CompressedLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedLogicalList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedNormalIRangesList | List of IRanges and NormalIRanges |
CompressedNormalIRangesList-class | List of IRanges and NormalIRanges |
CompressedNumericList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedNumericList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedRawList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedRawList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedRleList | Lists of Atomic Vectors in Natural and Rle Form |
CompressedRleList-class | Lists of Atomic Vectors in Natural and Rle Form |
CompressedSplitDataFrameList-class | List of DataFrames |
cor-method | Lists of Atomic Vectors in Natural and Rle Form |
cor-method | Rle objects |
countOverlap | Interval Search Trees |
countOverlaps | Interval Search Trees |
countOverlaps-method | Interval Search Trees |
cov-method | Lists of Atomic Vectors in Natural and Rle Form |
cov-method | Rle objects |
coverage | Coverage across a set of ranges |
coverage-method | Coverage across a set of ranges |
coverage.normargWidth | Coverage across a set of ranges |
DataFrame | External Data Frame |
DataFrame-class | External Data Frame |
DataFrameList | List of DataFrames |
DataFrameList-class | List of DataFrames |
DataTable | DataTable objects |
DataTable-class | DataTable objects |
DataTable-stats | Statistical modeling with DataTable |
DataTableORNULL-class | DataTable objects |
desc | MaskCollection objects |
desc-method | MaskCollection objects |
desc<- | MaskCollection objects |
desc<--method | MaskCollection objects |
diff-method | Lists of Atomic Vectors in Natural and Rle Form |
diff-method | Rle objects |
dim-method | List of DataFrames |
dim-method | DataTable objects |
dim-method | Matchings between Ranges |
dimnames-method | List of DataFrames |
dimnames-method | DataTable objects |
dimnames<--method | List of DataFrames |
dimnames<--method | DataTable objects |
disjoin | Making Ranges disjoint |
disjoin-method | RangesList utility functions |
disjoin-method | Making Ranges disjoint |
disjointBins | Making Ranges disjoint |
disjointBins-method | Making Ranges disjoint |
duplicated-method | Grouping objects |
duplicated-method | Ranges comparison |
Dups | Grouping objects |
Dups-class | Grouping objects |
elementLengths | Sequence objects |
elementLengths-method | GappedRanges objects |
elementLengths-method | Data on ranges |
elementLengths-method | Ranges objects |
elementLengths-method | Sequence objects |
elementMetadata | Sequence objects |
elementMetadata-method | Sequence objects |
elementMetadata<- | Sequence objects |
elementMetadata<--method | Sequence objects |
elementType | Sequence objects |
elementType-method | Sequence objects |
end-method | GappedRanges objects |
end-method | Grouping objects |
end-method | List of IRanges and NormalIRanges |
end-method | Interval Search Trees |
end-method | Data on ranges |
end-method | Ranges objects |
end-method | List of Ranges |
end-method | Rle objects |
end<- | Ranges objects |
end<--method | IRanges and NormalIRanges objects |
end<--method | Data on ranges |
end<--method | List of Ranges |
endoapply | Endomorphisms via application of a function over an object's elements |
endoapply-method | Data on ranges |
endoapply-method | Sequence objects |
endoapply-method | Simple and Compressed List Classes |
endoapply-method | Endomorphisms via application of a function over an object's elements |
eval-method | Collection of Filter Rules |
eval-method | Sequence objects |
Filter-method | Sequence objects |
FilterRules | Collection of Filter Rules |
filterRules | Applying over spaces |
FilterRules-class | Collection of Filter Rules |
filterRules-method | Applying over spaces |
filterRules<- | Applying over spaces |
filterRules<--method | Applying over spaces |
Find-method | Sequence objects |
findOverlaps | Interval Search Trees |
findOverlaps-method | Interval Search Trees |
findRange | Rle objects |
findRange-method | Rle objects |
findRun | Rle objects |
findRun-method | Rle objects |
first | Ranges objects |
first-method | Ranges objects |
flank | Ranges utility functions |
flank-method | Ranges utility functions |
flank-method | RangesList utility functions |
follow | Nearest neighbor finding |
follow-method | Nearest neighbor finding |
GappedRanges | GappedRanges objects |
GappedRanges-class | GappedRanges objects |
gaps | Set operations on IRanges objects |
gaps-method | Set operations on IRanges objects |
gaps-method | MaskCollection objects |
gaps-method | RangesList utility functions |
gaps-method | Views objects |
GroupedIRanges | XVectorList objects |
GroupedIRanges-class | XVectorList objects |
Grouping | Grouping objects |
Grouping-class | Grouping objects |
grouplength | Grouping objects |
grouplength-method | Grouping objects |
grouprank | Grouping objects |
grouprank-method | Grouping objects |
gsub-method | Lists of Atomic Vectors in Natural and Rle Form |
gsub-method | Rle objects |
H2LGrouping | Grouping objects |
H2LGrouping-class | Grouping objects |
head-method | DataTable objects |
head-method | Sequence objects |
high2low | Grouping objects |
high2low-method | Grouping objects |
IntegerList | Lists of Atomic Vectors in Natural and Rle Form |
IntegerList-class | Lists of Atomic Vectors in Natural and Rle Form |
intersect-method | Set operations on IRanges objects |
intersect-method | RangesList utility functions |
IntervalTree | Interval Search Trees |
IntervalTree-class | Interval Search Trees |
IQR-method | Lists of Atomic Vectors in Natural and Rle Form |
IQR-method | Rle objects |
IRanges | The IRanges constructor and supporting functions |
IRanges-class | IRanges and NormalIRanges objects |
IRanges-constructor | The IRanges constructor and supporting functions |
IRanges-setops | Set operations on IRanges objects |
IRanges-utils | IRanges utility functions |
IRangesList | List of IRanges and NormalIRanges |
IRangesList-class | List of IRanges and NormalIRanges |
is.na-method | Lists of Atomic Vectors in Natural and Rle Form |
is.na-method | DataTable objects |
is.na-method | Rle objects |
is.unsorted-method | Rle objects |
isDisjoint | Ranges objects |
isDisjoint-method | List of IRanges and NormalIRanges |
isDisjoint-method | Ranges objects |
isEmpty | Sequence objects |
isEmpty-method | IRanges and NormalIRanges objects |
isEmpty-method | Ranges objects |
isEmpty-method | Sequence objects |
isEmpty-method | Simple and Compressed List Classes |
isNormal | Ranges objects |
isNormal-method | IRanges and NormalIRanges objects |
isNormal-method | List of IRanges and NormalIRanges |
isNormal-method | Ranges objects |
lapply-method | Lists of Atomic Vectors in Natural and Rle Form |
lapply-method | Data on ranges |
lapply-method | Sequence objects |
lapply-method | Simple and Compressed List Classes |
last | Ranges objects |
last-method | Ranges objects |
length-method | GappedRanges objects |
length-method | Grouping objects |
length-method | Interval Search Trees |
length-method | MaskCollection objects |
length-method | Data on ranges |
length-method | Ranges objects |
length-method | Matchings between Ranges |
length-method | Rle objects |
length-method | Simple and Compressed List Classes |
length-method | XVector objects |
length-method | XVectorList objects |
length<--method | Grouping objects |
levels-method | Rle objects |
levels<--method | Rle objects |
LogicalList | Lists of Atomic Vectors in Natural and Rle Form |
LogicalList-class | Lists of Atomic Vectors in Natural and Rle Form |
low2high | Grouping objects |
low2high-method | Grouping objects |
mad-method | Lists of Atomic Vectors in Natural and Rle Form |
mad-method | Rle objects |
Map | Sequence objects |
Map-method | Sequence objects |
mapply | Sequence objects |
mapply-method | Sequence objects |
Mask | MaskCollection objects |
MaskCollection | MaskCollection objects |
MaskCollection-class | MaskCollection objects |
MaskCollection.show_frame | MaskCollection objects |
maskedratio | MaskCollection objects |
maskedratio-method | MaskCollection objects |
maskedwidth | MaskCollection objects |
maskedwidth-method | MaskCollection objects |
match-method | Lists of Atomic Vectors in Natural and Rle Form |
match-method | Interval Search Trees |
match-method | Rle objects |
matchMatrix | Matchings between Ranges |
matchMatrix-method | Matchings between Ranges |
Math-method | Lists of Atomic Vectors in Natural and Rle Form |
Math-method | Rle objects |
Math2-method | Lists of Atomic Vectors in Natural and Rle Form |
Math2-method | Rle objects |
max-method | IRanges and NormalIRanges objects |
max-method | List of IRanges and NormalIRanges |
max-method | MaskCollection objects |
mean-method | Lists of Atomic Vectors in Natural and Rle Form |
mean-method | Rle objects |
median-method | Lists of Atomic Vectors in Natural and Rle Form |
median-method | Rle objects |
members | Grouping objects |
members-method | Grouping objects |
mendoapply | Endomorphisms via application of a function over an object's elements |
mendoapply-method | Sequence objects |
mendoapply-method | Simple and Compressed List Classes |
mendoapply-method | Endomorphisms via application of a function over an object's elements |
metadata | Annotated class |
metadata-method | Annotated class |
metadata<- | Annotated class |
metadata<--method | Annotated class |
mid | Ranges objects |
mid-method | Ranges objects |
min-method | IRanges and NormalIRanges objects |
min-method | List of IRanges and NormalIRanges |
min-method | MaskCollection objects |
mseqapply | Apply function and cast to Sequence |
na.exclude | DataTable objects |
na.exclude-method | DataTable objects |
na.omit | DataTable objects |
na.omit-method | DataTable objects |
names-method | GappedRanges objects |
names-method | Grouping objects |
names-method | IRanges and NormalIRanges objects |
names-method | MaskCollection objects |
names-method | Data on ranges |
names-method | Simple and Compressed List Classes |
names-method | XVectorList objects |
names<--method | GappedRanges objects |
names<--method | Grouping objects |
names<--method | IRanges and NormalIRanges objects |
names<--method | MaskCollection objects |
names<--method | Data on ranges |
names<--method | Simple and Compressed List Classes |
names<--method | XVectorList objects |
narrow | Ranges utility functions |
narrow-method | Ranges utility functions |
narrow-method | RangesList utility functions |
narrow-method | XVectorList objects |
nchar-method | Lists of Atomic Vectors in Natural and Rle Form |
nchar-method | Rle objects |
NCOL-method | DataTable objects |
ncol-method | External Data Frame |
ncol-method | List of DataFrames |
ncol-method | Data on ranges |
nearest | Nearest neighbor finding |
nearest-method | Nearest neighbor finding |
newViews | Views objects |
ngap | GappedRanges objects |
ngap-method | GappedRanges objects |
nir_list | MaskCollection objects |
nir_list-method | MaskCollection objects |
nlevels-method | Sequence objects |
nobj | Grouping objects |
nobj-method | Grouping objects |
NormalIRanges | IRanges and NormalIRanges objects |
NormalIRanges-class | IRanges and NormalIRanges objects |
NormalIRangesList | List of IRanges and NormalIRanges |
NormalIRangesList-class | List of IRanges and NormalIRanges |
NROW-method | DataTable objects |
NROW-method | Sequence objects |
nrow-method | External Data Frame |
nrow-method | List of DataFrames |
nrow-method | Data on ranges |
nrun | Rle objects |
nrun-method | Rle objects |
NumericList | Lists of Atomic Vectors in Natural and Rle Form |
NumericList-class | Lists of Atomic Vectors in Natural and Rle Form |
Ops-method | Lists of Atomic Vectors in Natural and Rle Form |
Ops-method | Ranges objects |
Ops-method | List of Ranges |
Ops-method | Rle objects |
order | Ranges comparison |
order-method | Ranges comparison |
overlap | Interval Search Trees |
Partitioning | Grouping objects |
Partitioning-class | Grouping objects |
PartitioningByEnd | Grouping objects |
PartitioningByEnd-class | Grouping objects |
PartitioningByWidth | Grouping objects |
PartitioningByWidth-class | Grouping objects |
paste | Rle objects |
paste-method | Rle objects |
pgap | Set operations on IRanges objects |
pgap-method | Set operations on IRanges objects |
pintersect | Set operations on IRanges objects |
pintersect-method | Set operations on IRanges objects |
pmax | Rle objects |
pmax-method | Lists of Atomic Vectors in Natural and Rle Form |
pmax-method | Rle objects |
pmax.int | Rle objects |
pmax.int-method | Lists of Atomic Vectors in Natural and Rle Form |
pmax.int-method | Rle objects |
pmin | Rle objects |
pmin-method | Lists of Atomic Vectors in Natural and Rle Form |
pmin-method | Rle objects |
pmin.int | Rle objects |
pmin.int-method | Lists of Atomic Vectors in Natural and Rle Form |
pmin.int-method | Rle objects |
Position-method | Sequence objects |
precede | Nearest neighbor finding |
precede-method | Nearest neighbor finding |
psetdiff | Set operations on IRanges objects |
psetdiff-method | Set operations on IRanges objects |
punion | Set operations on IRanges objects |
punion-method | Set operations on IRanges objects |
quantile-method | Lists of Atomic Vectors in Natural and Rle Form |
quantile-method | Rle objects |
queryHits | Matchings between Ranges |
queryHits-method | Matchings between Ranges |
queryHits-method | List of Matchings between Ranges |
range-method | RangedData utility functions |
range-method | Ranges utility functions |
range-method | RangesList utility functions |
RangedData | Data on ranges |
rangedData | Applying over spaces |
RangedData-class | Data on ranges |
rangedData-method | Applying over spaces |
RangedData-utils | RangedData utility functions |
rangedData<- | Applying over spaces |
rangedData<--method | Applying over spaces |
RangedDataList | Lists of RangedData |
RangedDataList-class | Lists of RangedData |
RangedSelection | Selection of ranges and columns |
RangedSelection-class | Selection of ranges and columns |
Ranges | Ranges objects |
ranges | Data on ranges |
Ranges-class | Ranges objects |
Ranges-comparison | Ranges comparison |
ranges-method | Data on ranges |
ranges-method | Selection of ranges and columns |
ranges-method | Matchings between Ranges |
ranges-method | List of Matchings between Ranges |
Ranges-utils | Ranges utility functions |
ranges<- | Data on ranges |
ranges<--method | Data on ranges |
ranges<--method | Selection of ranges and columns |
RangesList | List of Ranges |
RangesList-class | List of Ranges |
RangesList-utils | RangesList utility functions |
RangesMatching-class | Matchings between Ranges |
RangesMatchingList-class | List of Matchings between Ranges |
RangesORmissing-class | Ranges objects |
rank-method | Ranges comparison |
RawList | Lists of Atomic Vectors in Natural and Rle Form |
RawList-class | Lists of Atomic Vectors in Natural and Rle Form |
rbind | DataTable objects |
rbind-method | External Data Frame |
rbind-method | List of DataFrames |
rbind-method | DataTable objects |
rbind-method | Data on ranges |
rdapply | Applying over spaces |
rdapply-method | Applying over spaces |
RDApplyParams | Applying over spaces |
RDApplyParams-class | Applying over spaces |
read.agpMask | Read a mask from a file |
read.gapMask | Read a mask from a file |
read.liftMask | Read a mask from a file |
read.Mask | Read a mask from a file |
read.rmMask | Read a mask from a file |
read.trfMask | Read a mask from a file |
reduce | Ranges utility functions |
Reduce-method | Sequence objects |
reduce-method | Data on ranges |
reduce-method | Ranges utility functions |
reduce-method | RangesList utility functions |
reducerFun | Applying over spaces |
reducerFun-method | Applying over spaces |
reducerFun<- | Applying over spaces |
reducerFun<--method | Applying over spaces |
reducerParams | Applying over spaces |
reducerParams-method | Applying over spaces |
reducerParams<- | Applying over spaces |
reducerParams<--method | Applying over spaces |
reflect | Ranges utility functions |
reflect-method | Ranges utility functions |
rep-method | Rle objects |
rep-method | Sequence objects |
rep.int | Sequence objects |
rep.int-method | Rle objects |
rep.int-method | Sequence objects |
resize | Ranges utility functions |
resize-method | Ranges utility functions |
resize-method | RangesList utility functions |
restrict | Ranges utility functions |
restrict-method | Ranges utility functions |
restrict-method | RangesList utility functions |
rev-method | Rle objects |
rev-method | Sequence objects |
reverse | Reverse an IRanges object |
reverse-method | Reverse an IRanges object |
Rle | Rle objects |
Rle-class | Rle objects |
Rle-method | Rle objects |
RleList | Lists of Atomic Vectors in Natural and Rle Form |
RleList-class | Lists of Atomic Vectors in Natural and Rle Form |
RleViews | The RleViews class |
RleViews-class | The RleViews class |
RleViewsList | List of RleViews |
RleViewsList-class | List of RleViews |
rownames-method | External Data Frame |
rownames-method | List of DataFrames |
rownames-method | Data on ranges |
rownames<--method | External Data Frame |
rownames<--method | List of DataFrames |
rownames<--method | Data on ranges |
runLength | Rle objects |
runLength-method | Rle objects |
runLength<- | Rle objects |
runLength<--method | Rle objects |
runmean | Fixed width running window summaries across vector-like objects |
runmean-method | Lists of Atomic Vectors in Natural and Rle Form |
runmean-method | Rle objects |
runmed-method | Lists of Atomic Vectors in Natural and Rle Form |
runmed-method | Rle objects |
runq | Fixed width running window summaries across vector-like objects |
runq-method | Lists of Atomic Vectors in Natural and Rle Form |
runq-method | Rle objects |
runstat | Fixed width running window summaries across vector-like objects |
runsum | Fixed width running window summaries across vector-like objects |
runsum-method | Lists of Atomic Vectors in Natural and Rle Form |
runsum-method | Rle objects |
runValue | Rle objects |
runValue-method | Rle objects |
runValue<- | Rle objects |
runValue<--method | Rle objects |
runwtsum | Fixed width running window summaries across vector-like objects |
runwtsum-method | Lists of Atomic Vectors in Natural and Rle Form |
runwtsum-method | Rle objects |
safeExplode | Low-level string utilities |
sapply-method | Sequence objects |
score | Score accessor and setter |
score-method | Alignments between sequences |
score-method | Data on ranges |
score<- | Score accessor and setter |
score<--method | Data on ranges |
sd-method | Lists of Atomic Vectors in Natural and Rle Form |
sd-method | Rle objects |
seqapply | Apply function and cast to Sequence |
seqselect | Sequence objects |
seqselect-method | External Data Frame |
seqselect-method | DataTable objects |
seqselect-method | GappedRanges objects |
seqselect-method | IRanges and NormalIRanges objects |
seqselect-method | Data on ranges |
seqselect-method | Rle objects |
seqselect-method | Sequence objects |
seqselect-method | Simple and Compressed List Classes |
seqselect-method | XVector objects |
seqselect-method | XVectorList objects |
seqselect<- | Sequence objects |
seqselect<--method | Lists of Atomic Vectors in Natural and Rle Form |
seqselect<--method | DataTable objects |
seqselect<--method | IRanges and NormalIRanges objects |
seqselect<--method | Data on ranges |
seqselect<--method | Rle objects |
seqselect<--method | Sequence objects |
seqselect<--method | Simple and Compressed List Classes |
seqsplit | Apply function and cast to Sequence |
Sequence | Sequence objects |
Sequence-class | Sequence objects |
setdiff-method | Set operations on IRanges objects |
setdiff-method | RangesList utility functions |
shift | Ranges utility functions |
shift-method | Ranges utility functions |
shift-method | RangesList utility functions |
shiftApply | Sequence objects |
shiftApply-method | Rle objects |
shiftApply-method | Sequence objects |
show-method | Lists of Atomic Vectors in Natural and Rle Form |
show-method | List of DataFrames |
show-method | DataTable objects |
show-method | GappedRanges objects |
show-method | Grouping objects |
show-method | List of IRanges and NormalIRanges |
show-method | MaskCollection objects |
show-method | Data on ranges |
show-method | Ranges objects |
show-method | List of Ranges |
show-method | Rle objects |
show-method | The RleViews class |
show-method | Simple and Compressed List Classes |
show-method | The XIntegerViews class |
show-method | XVector objects |
show-method | XVectorList objects |
SimpleAtomicList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleCharacterList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleCharacterList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleComplexList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleComplexList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleDataFrameList-class | List of DataFrames |
SimpleIntegerList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleIntegerList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleIRangesList | List of IRanges and NormalIRanges |
SimpleIRangesList-class | List of IRanges and NormalIRanges |
SimpleList | Simple and Compressed List Classes |
SimpleList-class | Simple and Compressed List Classes |
SimpleLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleLogicalList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleNormalIRangesList | List of IRanges and NormalIRanges |
SimpleNormalIRangesList-class | List of IRanges and NormalIRanges |
SimpleNumericList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleNumericList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleRangesList | List of Ranges |
SimpleRangesList-class | List of Ranges |
SimpleRawList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleRawList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleRleList | Lists of Atomic Vectors in Natural and Rle Form |
SimpleRleList-class | Lists of Atomic Vectors in Natural and Rle Form |
SimpleRleViewsList-class | List of RleViews |
SimpleSplitDataFrameList-class | List of DataFrames |
simplify | Applying over spaces |
simplify-method | Applying over spaces |
simplify<- | Applying over spaces |
simplify<--method | Applying over spaces |
slice | Utility functions and numeric summary of Views of numerics |
slice-method | Utility functions and numeric summary of Views of numerics |
smoothEnds-method | Lists of Atomic Vectors in Natural and Rle Form |
smoothEnds-method | Rle objects |
solveUserSEW | The IRanges constructor and supporting functions |
solveUserSEW0 | The IRanges constructor and supporting functions |
sort-method | Lists of Atomic Vectors in Natural and Rle Form |
sort-method | Ranges comparison |
sort-method | Rle objects |
space | List of Ranges |
space-method | Data on ranges |
space-method | List of Ranges |
space-method | List of Matchings between Ranges |
split-method | External Data Frame |
split-method | List of IRanges and NormalIRanges |
split-method | Data on ranges |
split-method | List of Ranges |
split-method | Rle objects |
SplitDataFrameList | List of DataFrames |
SplitDataFrameList-class | List of DataFrames |
splitRanges | Rle objects |
splitRanges-method | Rle objects |
stack-method | List of DataFrames |
stack-method | Lists of RangedData |
stack-method | Sequence objects |
start-method | GappedRanges objects |
start-method | Grouping objects |
start-method | IRanges and NormalIRanges objects |
start-method | List of IRanges and NormalIRanges |
start-method | Interval Search Trees |
start-method | Data on ranges |
start-method | Ranges objects |
start-method | List of Ranges |
start-method | Rle objects |
start<- | Ranges objects |
start<--method | IRanges and NormalIRanges objects |
start<--method | Data on ranges |
start<--method | List of Ranges |
strsplitAsListOfIntegerVectors | Low-level string utilities |
sub-method | Lists of Atomic Vectors in Natural and Rle Form |
sub-method | Rle objects |
subject | Views objects |
subject-method | List of RleViews |
subject-method | Views objects |
subjectHits | Matchings between Ranges |
subjectHits-method | Matchings between Ranges |
subjectHits-method | List of Matchings between Ranges |
subseq | XVector objects |
subseq-method | MaskCollection objects |
subseq-method | XVector objects |
subseq-method | XVectorList objects |
subseq<- | XVector objects |
subseq<--method | XVector objects |
subset-method | DataTable objects |
subset-method | Sequence objects |
subsetByOverlaps | Interval Search Trees |
subsetByOverlaps-method | Interval Search Trees |
substr-method | Rle objects |
substring-method | Rle objects |
subviews | Views objects |
subviews-method | Views objects |
successiveIRanges | IRanges utility functions |
successiveViews | Views objects |
Summary-method | Lists of Atomic Vectors in Natural and Rle Form |
Summary-method | Rle objects |
summary-method | List of IRanges and NormalIRanges |
summary-method | Rle objects |
svn.time | Low-level string utilities |
t-method | Matchings between Ranges |
t-method | List of Matchings between Ranges |
table | Rle objects |
table-method | Lists of Atomic Vectors in Natural and Rle Form |
table-method | Rle objects |
tail-method | DataTable objects |
tail-method | Sequence objects |
tapply-method | Sequence objects |
threebands | Ranges utility functions |
threebands-method | Ranges utility functions |
threebands-method | XVectorList objects |
togroup | Grouping objects |
togroup-method | Grouping objects |
togrouplength | Grouping objects |
togrouplength-method | Grouping objects |
togrouprank | Grouping objects |
togrouprank-method | Grouping objects |
tolower-method | Lists of Atomic Vectors in Natural and Rle Form |
tolower-method | Rle objects |
toupper-method | Lists of Atomic Vectors in Natural and Rle Form |
toupper-method | Rle objects |
trim | Views objects |
trim-method | Views objects |
tseqapply | Apply function and cast to Sequence |
union-method | Set operations on IRanges objects |
union-method | RangesList utility functions |
unique-method | Lists of Atomic Vectors in Natural and Rle Form |
unique-method | Ranges comparison |
unique-method | Rle objects |
universe | List of Ranges |
universe-method | Data on ranges |
universe-method | List of Ranges |
universe<- | List of Ranges |
universe<--method | Data on ranges |
universe<--method | List of Ranges |
unlist-method | List of IRanges and NormalIRanges |
unlist-method | Lists of RangedData |
unlist-method | Ranges objects |
unlist-method | Simple and Compressed List Classes |
update-method | IRanges and NormalIRanges objects |
update-method | Ranges objects |
updateObject | Update an IRanges object from BioC 2.4 to current version |
updateObject-method | Update an IRanges object from BioC 2.4 to current version |
values | Sequence objects |
values-method | Data on ranges |
values-method | Sequence objects |
values<- | Sequence objects |
values<--method | Data on ranges |
values<--method | Sequence objects |
var-method | Lists of Atomic Vectors in Natural and Rle Form |
var-method | Rle objects |
viewApply | Utility functions and numeric summary of Views of numerics |
viewApply-method | Utility functions and numeric summary of Views of numerics |
viewMaxs | Utility functions and numeric summary of Views of numerics |
viewMaxs-method | Utility functions and numeric summary of Views of numerics |
viewMeans | Utility functions and numeric summary of Views of numerics |
viewMeans-method | Utility functions and numeric summary of Views of numerics |
viewMins | Utility functions and numeric summary of Views of numerics |
viewMins-method | Utility functions and numeric summary of Views of numerics |
viewRangeMaxs | Utility functions and numeric summary of Views of numerics |
viewRangeMaxs-method | Utility functions and numeric summary of Views of numerics |
viewRangeMins | Utility functions and numeric summary of Views of numerics |
viewRangeMins-method | Utility functions and numeric summary of Views of numerics |
Views | Views objects |
views | Views objects |
Views-class | Views objects |
Views-method | The RleViews class |
Views-method | List of RleViews |
Views-method | The XIntegerViews class |
Views-utils | Utility functions and numeric summary of Views of numerics |
viewSums | Utility functions and numeric summary of Views of numerics |
viewSums-method | Utility functions and numeric summary of Views of numerics |
viewWhichMaxs | Utility functions and numeric summary of Views of numerics |
viewWhichMaxs-method | Utility functions and numeric summary of Views of numerics |
viewWhichMins | Utility functions and numeric summary of Views of numerics |
viewWhichMins-method | Utility functions and numeric summary of Views of numerics |
vmembers | Grouping objects |
vmembers-method | Grouping objects |
which-method | Lists of Atomic Vectors in Natural and Rle Form |
which-method | Rle objects |
whichAsIRanges | IRanges utility functions |
whichFirstNotNormal | Ranges objects |
whichFirstNotNormal-method | List of IRanges and NormalIRanges |
whichFirstNotNormal-method | Ranges objects |
width | Ranges objects |
width-method | Grouping objects |
width-method | IRanges and NormalIRanges objects |
width-method | List of IRanges and NormalIRanges |
width-method | MaskCollection objects |
width-method | Data on ranges |
width-method | Ranges objects |
width-method | List of Ranges |
width-method | Rle objects |
width-method | XVectorList objects |
width<- | Ranges objects |
width<--method | IRanges and NormalIRanges objects |
width<--method | Data on ranges |
width<--method | List of Ranges |
window-method | DataTable objects |
window-method | GappedRanges objects |
window-method | IRanges and NormalIRanges objects |
window-method | Rle objects |
window-method | Sequence objects |
window-method | XVector objects |
window-method | XVectorList objects |
window<--method | DataTable objects |
window<--method | Data on ranges |
window<--method | Sequence objects |
with-method | Sequence objects |
within-method | Data on ranges |
XDouble | XVector objects |
XDouble-class | XVector objects |
XInteger | XVector objects |
XInteger-class | XVector objects |
XIntegerViews | The XIntegerViews class |
XIntegerViews-class | The XIntegerViews class |
XNumeric | XVector objects |
XRaw | XVector objects |
XRaw-class | XVector objects |
XRawList | XVectorList objects |
XRawList-class | XVectorList objects |
xtabs-method | Statistical modeling with DataTable |
XVector | XVector objects |
XVector-class | XVector objects |
XVectorList | XVectorList objects |
XVectorList-class | XVectorList objects |
[-method | External Data Frame |
[-method | List of DataFrames |
[-method | Collection of Filter Rules |
[-method | GappedRanges objects |
[-method | IRanges and NormalIRanges objects |
[-method | List of IRanges and NormalIRanges |
[-method | MaskCollection objects |
[-method | Data on ranges |
[-method | Ranges objects |
[-method | List of Ranges |
[-method | Rle objects |
[-method | Sequence objects |
[-method | Simple and Compressed List Classes |
[-method | XVector objects |
[-method | XVectorList objects |
[<--method | External Data Frame |
[<--method | List of DataFrames |
[<--method | IRanges and NormalIRanges objects |
[<--method | Data on ranges |
[<--method | Rle objects |
[<--method | Sequence objects |
[<--method | XVectorList objects |
[[-method | External Data Frame |
[[-method | GappedRanges objects |
[[-method | Grouping objects |
[[-method | List of IRanges and NormalIRanges |
[[-method | MaskCollection objects |
[[-method | Data on ranges |
[[-method | Ranges objects |
[[-method | Sequence objects |
[[-method | Simple and Compressed List Classes |
[[-method | Views objects |
[[-method | XVectorList objects |
[[<--method | External Data Frame |
[[<--method | Collection of Filter Rules |
[[<--method | Data on ranges |
[[<--method | Simple and Compressed List Classes |
[[<--method | XVectorList objects |