A B C D E F G H I L M N O P Q R S T U V W misc
| active | MaskCollection objects |
| active-method | MaskCollection objects |
| active<- | MaskCollection objects |
| active<--method | MaskCollection objects |
| all-method | Common operations on AtomicList objects |
| any-method | Common operations on AtomicList objects |
| anyNA-method | Common operations on AtomicList objects |
| append-method | MaskCollection objects |
| as.character-method | IPosRanges objects |
| as.data.frame-method | Examples of basic manipulation of Hits objects |
| as.data.frame-method | IPos objects |
| as.data.frame-method | IPosRanges objects |
| as.data.frame-method | Data on ranges |
| as.data.frame.IPos | IPos objects |
| as.data.frame.IPosRanges | IPosRanges objects |
| as.env-method | List of DataFrames |
| as.env-method | Data on ranges |
| as.factor-method | IPosRanges objects |
| as.list-method | Lists of Atomic Vectors in Natural and Rle Form |
| as.list-method | Examples of basic manipulation of Hits objects |
| as.list-method | List of IRanges and NormalIRanges |
| as.matrix-method | Lists of Atomic Vectors in Natural and Rle Form |
| as.matrix-method | CompressedHitsList objects |
| as.matrix-method | IPosRanges objects |
| as.matrix-method | Views objects |
| as.matrix-method | List of Views |
| as.vector-method | Lists of Atomic Vectors in Natural and Rle Form |
| asNormalIRanges | IRanges utility functions |
| AtomicList | Lists of Atomic Vectors in Natural and Rle Form |
| AtomicList-class | Lists of Atomic Vectors in Natural and Rle Form |
| AtomicList-utils | Common operations on AtomicList objects |
| bindROWS-method | CompressedList objects |
| bindROWS-method | Grouping objects |
| bindROWS-method | IPos objects |
| bindROWS-method | Nested Containment List objects |
| bindROWS-method | Views objects |
| breakInChunks | IRanges utility functions |
| c-method | Data on ranges |
| cbind-method | List of DataFrames |
| CharacterList | Lists of Atomic Vectors in Natural and Rle Form |
| CharacterList-class | Lists of Atomic Vectors in Natural and Rle Form |
| chartr-method | Common operations on AtomicList objects |
| class:AtomicList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CharacterList | Lists of Atomic Vectors in Natural and Rle Form |
| class:ComplexList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedAtomicList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedCharacterList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedComplexList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedDataFrameList | List of DataFrames |
| class:CompressedDFrameList | List of DataFrames |
| class:CompressedFactorList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedGrouping | Grouping objects |
| class:CompressedHitsList | CompressedHitsList objects |
| class:CompressedIntegerList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedIRangesList | List of IRanges and NormalIRanges |
| class:CompressedList | CompressedList objects |
| class:CompressedLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedManyToManyGrouping | Grouping objects |
| class:CompressedManyToOneGrouping | Grouping objects |
| class:CompressedNormalIRangesList | List of IRanges and NormalIRanges |
| class:CompressedNumericList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedRawList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedRleList | Lists of Atomic Vectors in Natural and Rle Form |
| class:CompressedSplitDataFrameList | List of DataFrames |
| class:CompressedSplitDFrameList | List of DataFrames |
| class:DataFrameList | List of DataFrames |
| class:DFrameList | List of DataFrames |
| class:Dups | Grouping objects |
| class:FactorList | Lists of Atomic Vectors in Natural and Rle Form |
| class:Grouping | Grouping objects |
| class:GroupingIRanges | Grouping objects |
| class:GroupingRanges | Grouping objects |
| class:H2LGrouping | Grouping objects |
| class:IntegerList | Lists of Atomic Vectors in Natural and Rle Form |
| class:IntegerRanges | IntegerRanges objects |
| class:IntegerRangesList | IntegerRangesList objects |
| class:IntegerRanges_OR_missing | Finding the nearest range/position neighbor |
| class:IPos | IPos objects |
| class:IPosRanges | IPosRanges objects |
| class:IRanges | IRanges and NormalIRanges objects |
| class:IRangesList | List of IRanges and NormalIRanges |
| class:LogicalList | Lists of Atomic Vectors in Natural and Rle Form |
| class:ManyToManyGrouping | Grouping objects |
| class:ManyToOneGrouping | Grouping objects |
| class:MaskCollection | MaskCollection objects |
| class:NCList | Nested Containment List objects |
| class:NCLists | Nested Containment List objects |
| class:NormalIRanges | IRanges and NormalIRanges objects |
| class:NormalIRangesList | List of IRanges and NormalIRanges |
| class:NumericList | Lists of Atomic Vectors in Natural and Rle Form |
| class:Partitioning | Grouping objects |
| class:PartitioningByEnd | Grouping objects |
| class:PartitioningByWidth | Grouping objects |
| class:PartitioningMap | Grouping objects |
| class:RangedData | Data on ranges |
| class:RawList | Lists of Atomic Vectors in Natural and Rle Form |
| class:RleList | Lists of Atomic Vectors in Natural and Rle Form |
| class:RleViews | The RleViews class |
| class:SimpleAtomicList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleCharacterList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleComplexList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleDataFrameList | List of DataFrames |
| class:SimpleDFrameList | List of DataFrames |
| class:SimpleFactorList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleGrouping | Grouping objects |
| class:SimpleIntegerList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleIntegerRangesList | IntegerRangesList objects |
| class:SimpleIRangesList | List of IRanges and NormalIRanges |
| class:SimpleLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleManyToManyGrouping | Grouping objects |
| class:SimpleManyToOneGrouping | Grouping objects |
| class:SimpleNormalIRangesList | List of IRanges and NormalIRanges |
| class:SimpleNumericList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleRawList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleRleList | Lists of Atomic Vectors in Natural and Rle Form |
| class:SimpleSplitDataFrameList | List of DataFrames |
| class:SimpleSplitDFrameList | List of DataFrames |
| class:SimpleViewsList | List of Views |
| class:SplitDataFrameList | List of DataFrames |
| class:SplitDFrameList | List of DataFrames |
| class:StitchedIPos | IPos objects |
| class:UnstitchedIPos | IPos objects |
| class:Views | Views objects |
| class:ViewsList | List of Views |
| classNameForDisplay-method | CompressedList objects |
| classNameForDisplay-method | List of DataFrames |
| coerce,AtomicList,RleViews | Lists of Atomic Vectors in Natural and Rle Form |
| coerce,Hits,Grouping | Examples of basic manipulation of Hits objects |
| coerce-method | Lists of Atomic Vectors in Natural and Rle Form |
| coerce-method | CompressedList objects |
| coerce-method | List of DataFrames |
| coerce-method | Grouping objects |
| coerce-method | Examples of basic manipulation of Hits objects |
| coerce-method | IPos objects |
| coerce-method | IRanges and NormalIRanges objects |
| coerce-method | IRanges utility functions |
| coerce-method | List of IRanges and NormalIRanges |
| coerce-method | MaskCollection objects |
| coerce-method | Nested Containment List objects |
| coerce-method | Data on ranges |
| coerce-method | Selection of ranges and columns |
| coerce-method | Rle objects (old man page) |
| coerce-method | List of RleViews |
| coerce-method | Views objects |
| collapse | MaskCollection objects |
| collapse-method | MaskCollection objects |
| colnames-method | List of DataFrames |
| colnames-method | Data on ranges |
| colnames-method | Selection of ranges and columns |
| 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 |
| Complex-method | Common operations on AtomicList objects |
| ComplexList | Lists of Atomic Vectors in Natural and Rle Form |
| ComplexList-class | Lists of Atomic Vectors in Natural and Rle Form |
| CompressedAtomicList | 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 |
| CompressedDataFrameList | List of DataFrames |
| CompressedDataFrameList-class | List of DataFrames |
| CompressedDFrameList | List of DataFrames |
| CompressedDFrameList-class | List of DataFrames |
| CompressedFactorList | Lists of Atomic Vectors in Natural and Rle Form |
| CompressedFactorList-class | Lists of Atomic Vectors in Natural and Rle Form |
| CompressedGrouping-class | Grouping objects |
| CompressedHitsList | CompressedHitsList objects |
| CompressedHitsList-class | CompressedHitsList objects |
| 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 | CompressedList objects |
| CompressedList-class | CompressedList objects |
| CompressedLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
| CompressedLogicalList-class | Lists of Atomic Vectors in Natural and Rle Form |
| CompressedManyToManyGrouping-class | Grouping objects |
| CompressedManyToOneGrouping-class | Grouping objects |
| 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 | List of DataFrames |
| CompressedSplitDataFrameList-class | List of DataFrames |
| CompressedSplitDFrameList | List of DataFrames |
| CompressedSplitDFrameList-class | List of DataFrames |
| cor-method | Common operations on AtomicList objects |
| countOverlaps | Finding overlapping ranges |
| countOverlaps-method | Finding overlapping ranges |
| cov-method | Common operations on AtomicList objects |
| coverage | Coverage of a set of ranges |
| coverage-method | Coverage of a set of ranges |
| coverage-methods | Coverage of a set of ranges |
| cummax-method | Common operations on AtomicList objects |
| cummin-method | Common operations on AtomicList objects |
| cumprod-method | Common operations on AtomicList objects |
| cumsum-method | Common operations on AtomicList objects |
| DataFrame-utils | Common operations on DataFrame objects |
| DataFrameList | List of DataFrames |
| DataFrameList-class | List of DataFrames |
| desc | MaskCollection objects |
| desc-method | MaskCollection objects |
| desc<- | MaskCollection objects |
| desc<--method | MaskCollection objects |
| DFrameList | List of DataFrames |
| DFrameList-class | List of DataFrames |
| diff-method | Common operations on AtomicList objects |
| diff.AtomicList | Common operations on AtomicList objects |
| dim-method | List of DataFrames |
| dimnames-method | List of DataFrames |
| dimnames<--method | List of DataFrames |
| disjoin | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| disjoin-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| disjointBins | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| disjointBins-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| distance | Finding the nearest range/position neighbor |
| distance-method | Finding the nearest range/position neighbor |
| distanceToNearest | Finding the nearest range/position neighbor |
| distanceToNearest-method | Finding the nearest range/position neighbor |
| drop-method | Lists of Atomic Vectors in Natural and Rle Form |
| duplicated-method | Lists of Atomic Vectors in Natural and Rle Form |
| duplicated-method | Grouping objects |
| Dups | Grouping objects |
| Dups-class | Grouping objects |
| elementNROWS-method | CompressedList objects |
| elementNROWS-method | IPosRanges objects |
| elementNROWS-method | Nested Containment List objects |
| elementNROWS-method | Data on ranges |
| end-method | Grouping objects |
| end-method | IPosRanges objects |
| end-method | List of IRanges and NormalIRanges |
| end-method | IntegerRangesList objects |
| end-method | Nested Containment List objects |
| end-method | Data on ranges |
| end-method | List of Views |
| end<- | IPosRanges objects |
| end<--method | IRanges and NormalIRanges objects |
| end<--method | IntegerRangesList objects |
| end<--method | Data on ranges |
| end<--method | Views objects |
| equisplit | Extract list fragments from a list-like object |
| eval | Vector objects (old man page) |
| eval-method | Vector objects (old man page) |
| extractList | Group elements of a vector-like object into a list-like object |
| extractList-method | Group elements of a vector-like object into a list-like object |
| extractListFragments | Extract list fragments from a list-like object |
| extractROWS-method | Grouping objects |
| extractROWS-method | IPos objects |
| extractROWS-method | Nested Containment List objects |
| FactorList | Lists of Atomic Vectors in Natural and Rle Form |
| FactorList-class | Lists of Atomic Vectors in Natural and Rle Form |
| findOverlapPairs | Finding overlapping ranges |
| findOverlaps | Finding overlapping ranges |
| findOverlaps-method | Finding overlapping ranges |
| findOverlaps-methods | Finding overlapping ranges |
| findRange | Rle objects (old man page) |
| findRange-method | Rle objects (old man page) |
| flank | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| flank-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| follow | Finding the nearest range/position neighbor |
| follow-method | Finding the nearest range/position neighbor |
| from-method | CompressedHitsList objects |
| gaps | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| gaps-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| getListElement-method | IPosRanges objects |
| Grouping | Grouping objects |
| Grouping-class | Grouping objects |
| GroupingIRanges | Grouping objects |
| GroupingIRanges-class | Grouping objects |
| GroupingRanges | Grouping objects |
| GroupingRanges-class | Grouping objects |
| grouplengths | Grouping objects |
| grouplengths-method | Grouping objects |
| grouprank | Grouping objects |
| grouprank-method | Grouping objects |
| gsub-method | Common operations on AtomicList objects |
| H2LGrouping | Grouping objects |
| H2LGrouping-class | Grouping objects |
| high2low | Grouping objects |
| high2low-method | Grouping objects |
| Hits-examples | Examples of basic manipulation of Hits objects |
| ifelse2 | Common operations on AtomicList objects |
| ifelse2-method | Common operations on AtomicList objects |
| INCOMPATIBLE_ARANGES_MSG | Extract list fragments from a list-like object |
| IntegerList | Lists of Atomic Vectors in Natural and Rle Form |
| IntegerList-class | Lists of Atomic Vectors in Natural and Rle Form |
| IntegerRanges | IntegerRanges objects |
| IntegerRanges-class | IntegerRanges objects |
| IntegerRangesList | IntegerRangesList objects |
| IntegerRangesList-class | IntegerRangesList objects |
| IntegerRanges_OR_missing | Finding the nearest range/position neighbor |
| IntegerRanges_OR_missing-class | Finding the nearest range/position neighbor |
| inter-range-methods | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| intersect | Set operations on IntegerRanges and IntegerRangesList objects |
| intersect-method | Common operations on AtomicList objects |
| intersect-method | Set operations on IntegerRanges and IntegerRangesList objects |
| intra-range-methods | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| IPos | IPos objects |
| IPos-class | IPos objects |
| IPosRanges | IPosRanges objects |
| IPosRanges-class | IPosRanges objects |
| IPosRanges-comparison | Comparing and ordering ranges |
| IQR-method | Common operations on AtomicList objects |
| IRanges | The IRanges constructor and supporting functions |
| IRanges-class | IRanges and NormalIRanges objects |
| IRanges-constructor | The IRanges constructor and supporting functions |
| IRanges-utils | IRanges utility functions |
| IRangesList | List of IRanges and NormalIRanges |
| IRangesList-class | List of IRanges and NormalIRanges |
| is.na-method | CompressedList objects |
| is.unsorted-method | Comparing and ordering ranges |
| isDisjoint | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| isDisjoint-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| isEmpty-method | IPosRanges objects |
| isEmpty-method | IRanges and NormalIRanges objects |
| isNormal | IPosRanges objects |
| isNormal-method | IPosRanges objects |
| isNormal-method | IRanges and NormalIRanges objects |
| isNormal-method | List of IRanges and NormalIRanges |
| isNormal-method | IntegerRangesList objects |
| lapply-method | Lists of Atomic Vectors in Natural and Rle Form |
| lapply-method | CompressedList objects |
| length-method | CompressedList objects |
| length-method | Grouping objects |
| length-method | IPos objects |
| length-method | IPosRanges objects |
| length-method | MaskCollection objects |
| length-method | Nested Containment List objects |
| length-method | Data on ranges |
| length<--method | Grouping 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 | Common operations on AtomicList objects |
| ManyToManyGrouping | Grouping objects |
| ManyToManyGrouping-class | Grouping objects |
| ManyToOneGrouping | Grouping objects |
| ManyToOneGrouping-class | Grouping objects |
| mapOrder | Grouping objects |
| mapOrder-method | Grouping 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 | CompressedList objects |
| match-method | Comparing and ordering ranges |
| Math-method | Common operations on AtomicList objects |
| Math2-method | Common operations on AtomicList objects |
| max-method | IRanges and NormalIRanges objects |
| max-method | List of IRanges and NormalIRanges |
| max-method | MaskCollection objects |
| max-method | Summarize views on a vector-like object with numeric values |
| mean-method | Common operations on AtomicList objects |
| mean-method | Summarize views on a vector-like object with numeric values |
| median-method | Common operations on AtomicList objects |
| members | Grouping objects |
| members-method | Grouping objects |
| merge-method | IntegerRangesList objects |
| mergeByOverlaps | Finding overlapping ranges |
| mid | IPosRanges objects |
| mid-method | IPosRanges objects |
| min-method | IRanges and NormalIRanges objects |
| min-method | List of IRanges and NormalIRanges |
| min-method | MaskCollection objects |
| min-method | Summarize views on a vector-like object with numeric values |
| mstack | Vector objects (old man page) |
| mstack-method | Common operations on DataFrame objects |
| mstack-method | Vector objects (old man page) |
| multisplit | Split elements belonging to multiple groups |
| names-method | CompressedList objects |
| names-method | Grouping objects |
| names-method | IPos objects |
| names-method | IRanges and NormalIRanges objects |
| names-method | MaskCollection objects |
| names-method | Nested Containment List objects |
| names-method | Data on ranges |
| names-method | Views objects |
| names<--method | CompressedList objects |
| names<--method | Grouping objects |
| names<--method | IPos objects |
| names<--method | IRanges and NormalIRanges objects |
| names<--method | MaskCollection objects |
| names<--method | Data on ranges |
| names<--method | Views objects |
| narrow | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| narrow-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| nchar-method | Common operations on AtomicList objects |
| NCList | Nested Containment List objects |
| NCList-class | Nested Containment List objects |
| NCLists | Nested Containment List objects |
| NCLists-class | Nested Containment List objects |
| ncol-method | List of DataFrames |
| ncol-method | Data on ranges |
| nearest | Finding the nearest range/position neighbor |
| nearest-method | Finding the nearest range/position neighbor |
| nearest-methods | Finding the nearest range/position neighbor |
| nir_list | MaskCollection objects |
| nir_list-method | MaskCollection objects |
| nLnode-method | CompressedHitsList 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 |
| nRnode-method | CompressedHitsList objects |
| nrow-method | List of DataFrames |
| nrow-method | Data on ranges |
| NumericList | Lists of Atomic Vectors in Natural and Rle Form |
| NumericList-class | Lists of Atomic Vectors in Natural and Rle Form |
| Ops-method | Common operations on AtomicList objects |
| Ops-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| order-method | Lists of Atomic Vectors in Natural and Rle Form |
| order-method | Common operations on AtomicList objects |
| order-method | Comparing and ordering ranges |
| overlapsAny | Finding overlapping ranges |
| overlapsAny-method | Finding overlapping ranges |
| overlapsRanges | Finding overlapping ranges |
| overlapsRanges-method | Finding overlapping ranges |
| Partitioning | Grouping objects |
| Partitioning-class | Grouping objects |
| PartitioningByEnd | Grouping objects |
| PartitioningByEnd-class | Grouping objects |
| PartitioningByWidth | Grouping objects |
| PartitioningByWidth-class | Grouping objects |
| PartitioningMap | Grouping objects |
| PartitioningMap-class | Grouping objects |
| paste-method | Common operations on AtomicList objects |
| pcompare | Comparing and ordering ranges |
| pcompare-method | Comparing and ordering ranges |
| pgap | Set operations on IntegerRanges and IntegerRangesList objects |
| pgap-method | Set operations on IntegerRanges and IntegerRangesList objects |
| pintersect | Set operations on IntegerRanges and IntegerRangesList objects |
| pintersect-method | Set operations on IntegerRanges and IntegerRangesList objects |
| pmax-method | Common operations on AtomicList objects |
| pmax.int-method | Common operations on AtomicList objects |
| pmin-method | Common operations on AtomicList objects |
| pmin.int-method | Common operations on AtomicList objects |
| pos | IPos objects |
| pos-method | IPos objects |
| pos-method | List of IRanges and NormalIRanges |
| pos-method | IntegerRangesList objects |
| poverlaps | Finding overlapping ranges |
| poverlaps-method | Finding overlapping ranges |
| precede | Finding the nearest range/position neighbor |
| precede-method | Finding the nearest range/position neighbor |
| promoters | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| promoters-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| psetdiff | Set operations on IntegerRanges and IntegerRangesList objects |
| psetdiff-method | Set operations on IntegerRanges and IntegerRangesList objects |
| punion | Set operations on IntegerRanges and IntegerRangesList objects |
| punion-method | Set operations on IntegerRanges and IntegerRangesList objects |
| quantile-method | Common operations on AtomicList objects |
| range | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| range-method | Common operations on AtomicList objects |
| range-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| range-squeezers | Squeeze the ranges out of a range-based object |
| rangeComparisonCodeToLetter | Comparing and ordering ranges |
| RangedData | Data on ranges |
| RangedData-class | Data on ranges |
| RangedSelection | Selection of ranges and columns |
| RangedSelection-class | Selection of ranges and columns |
| ranges | Squeeze the ranges out of a range-based object |
| ranges-method | Lists of Atomic Vectors in Natural and Rle Form |
| ranges-method | IRanges and NormalIRanges objects |
| ranges-method | Nested Containment List objects |
| ranges-method | Data on ranges |
| ranges-method | Selection of ranges and columns |
| ranges-method | Rle objects (old man page) |
| ranges-method | Views objects |
| ranges-method | List of Views |
| ranges<- | Views objects |
| ranges<--method | Data on ranges |
| ranges<--method | Selection of ranges and columns |
| ranges<--method | Views objects |
| rank-method | Lists of Atomic Vectors in Natural and Rle Form |
| rank-method | Common operations on AtomicList objects |
| RawList | Lists of Atomic Vectors in Natural and Rle Form |
| RawList-class | Lists of Atomic Vectors in Natural and Rle Form |
| rbind-method | List of DataFrames |
| rbind-method | Data on ranges |
| 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 | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| reduce-method | Inter range transformations of an IntegerRanges, Views, IntegerRangesList, or MaskCollection object |
| reflect | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| reflect-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| regroup | Group elements of a vector-like object into a list-like object |
| relist | Group elements of a vector-like object into a list-like object |
| relist-method | Group elements of a vector-like object into a list-like object |
| relistToClass-method | Common operations on DataFrame objects |
| resize | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| resize-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| restrict | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| restrict-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| revElements-method | CompressedList objects |
| reverse | reverse |
| reverse-method | reverse |
| rglist | Squeeze the ranges out of a range-based object |
| rglist-method | Squeeze the ranges out of a range-based object |
| RleList | Lists of Atomic Vectors in Natural and Rle Form |
| RleList-class | Lists of Atomic Vectors in Natural and Rle Form |
| RleList-method | 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 | List of DataFrames |
| rownames-method | Data on ranges |
| rownames<--method | List of DataFrames |
| rownames<--method | Data on ranges |
| runLength-method | Lists of Atomic Vectors in Natural and Rle Form |
| runmean-method | Common operations on AtomicList objects |
| runmed-method | Common operations on AtomicList objects |
| runq-method | Common operations on AtomicList objects |
| runsum-method | Common operations on AtomicList objects |
| runValue-method | Lists of Atomic Vectors in Natural and Rle Form |
| runValue<--method | Lists of Atomic Vectors in Natural and Rle Form |
| runwtsum-method | Common operations on AtomicList objects |
| sd-method | Common operations on AtomicList objects |
| selectNearest | Finding the nearest range/position neighbor |
| selfmatch-method | Common operations on AtomicList objects |
| selfmatch-method | Comparing and ordering ranges |
| setdiff | Set operations on IntegerRanges and IntegerRangesList objects |
| setdiff-method | Set operations on IntegerRanges and IntegerRangesList objects |
| setops-methods | Set operations on IntegerRanges and IntegerRangesList objects |
| shift | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| shift-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| show-method | Lists of Atomic Vectors in Natural and Rle Form |
| show-method | List of DataFrames |
| show-method | Grouping objects |
| show-method | IPos objects |
| show-method | IPosRanges objects |
| show-method | IntegerRangesList objects |
| show-method | MaskCollection objects |
| show-method | Data on ranges |
| show-method | The RleViews class |
| SimpleAtomicList | Lists of Atomic Vectors in Natural and Rle Form |
| 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 | List of DataFrames |
| SimpleDataFrameList-class | List of DataFrames |
| SimpleDFrameList | List of DataFrames |
| SimpleDFrameList-class | List of DataFrames |
| SimpleFactorList | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleFactorList-class | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleGrouping-class | Grouping objects |
| SimpleIntegerList | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleIntegerList-class | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleIntegerRangesList | IntegerRangesList objects |
| SimpleIntegerRangesList-class | IntegerRangesList objects |
| SimpleIRangesList | List of IRanges and NormalIRanges |
| SimpleIRangesList-class | List of IRanges and NormalIRanges |
| SimpleLogicalList | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleLogicalList-class | Lists of Atomic Vectors in Natural and Rle Form |
| SimpleManyToManyGrouping-class | Grouping objects |
| SimpleManyToOneGrouping-class | Grouping objects |
| 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 |
| 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 | List of DataFrames |
| SimpleSplitDataFrameList-class | List of DataFrames |
| SimpleSplitDFrameList | List of DataFrames |
| SimpleSplitDFrameList-class | List of DataFrames |
| SimpleViewsList | List of Views |
| SimpleViewsList-class | List of Views |
| slice | Slice a vector-like or list-like object |
| slice-method | Slice a vector-like or list-like object |
| slice-methods | Slice a vector-like or list-like object |
| slidingWindows | IPosRanges objects |
| slidingWindows-method | IPosRanges objects |
| smoothEnds-method | Common operations on AtomicList 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 |
| space | IntegerRangesList objects |
| space-method | CompressedHitsList objects |
| space-method | IntegerRangesList objects |
| space-method | Data on ranges |
| split<--method | 2 methods that should be documented somewhere else |
| SplitDataFrameList | List of DataFrames |
| SplitDataFrameList-class | List of DataFrames |
| SplitDFrameList | List of DataFrames |
| SplitDFrameList-class | List of DataFrames |
| splitRanges | Rle objects (old man page) |
| splitRanges-method | Rle objects (old man page) |
| stack-method | List of DataFrames |
| stack-method | List objects (old man page) |
| start-method | Grouping objects |
| start-method | IPosRanges objects |
| start-method | IRanges and NormalIRanges objects |
| start-method | List of IRanges and NormalIRanges |
| start-method | IntegerRangesList objects |
| start-method | Nested Containment List objects |
| start-method | Data on ranges |
| start-method | Views objects |
| start-method | List of Views |
| start<- | IPosRanges objects |
| start<--method | IRanges and NormalIRanges objects |
| start<--method | IntegerRangesList objects |
| start<--method | Data on ranges |
| start<--method | Views objects |
| StitchedIPos | IPos objects |
| StitchedIPos-class | IPos objects |
| sub-method | Common operations on AtomicList objects |
| subject | Views objects |
| subject-method | List of RleViews |
| subject-method | Views objects |
| subsetByOverlaps | Finding overlapping ranges |
| subsetByOverlaps-method | Finding overlapping ranges |
| subviews | Views objects |
| subviews-method | Views objects |
| successiveIRanges | IRanges utility functions |
| successiveViews | Views objects |
| sum-method | Common operations on AtomicList objects |
| sum-method | Summarize views on a vector-like object with numeric values |
| Summary-method | Common operations on AtomicList objects |
| Summary-method | Summarize views on a vector-like object with numeric values |
| summary-method | List of IRanges and NormalIRanges |
| table-method | Lists of Atomic Vectors in Natural and Rle Form |
| tapply-method | Vector objects (old man page) |
| threebands | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| threebands-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| tile | IPosRanges objects |
| tile-method | IPosRanges objects |
| to-method | CompressedHitsList objects |
| togroup | Grouping objects |
| togroup-method | Grouping objects |
| togrouplength | Grouping objects |
| togrouplength-method | Grouping objects |
| togrouprank | Grouping objects |
| togrouprank-method | Grouping objects |
| tolower-method | Common operations on AtomicList objects |
| toupper-method | Common operations on AtomicList objects |
| transform-method | List of DataFrames |
| trim | Views objects |
| trim-method | Views objects |
| union | Set operations on IntegerRanges and IntegerRangesList objects |
| union-method | Set operations on IntegerRanges and IntegerRangesList objects |
| unique-method | Lists of Atomic Vectors in Natural and Rle Form |
| universe | Data on ranges |
| universe-method | Data on ranges |
| universe<- | Data on ranges |
| universe<--method | Data on ranges |
| unlist-method | Lists of Atomic Vectors in Natural and Rle Form |
| unlist-method | CompressedList objects |
| unlist-method | List of IRanges and NormalIRanges |
| unlist-method | Views objects |
| unsplit-method | 2 methods that should be documented somewhere else |
| UnstitchedIPos | IPos objects |
| UnstitchedIPos-class | IPos objects |
| unstrsplit-method | Common operations on AtomicList objects |
| updateObject-method | IPos objects |
| update_ranges | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| update_ranges-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| values-method | Data on ranges |
| values<--method | Data on ranges |
| var-method | Common operations on AtomicList objects |
| vertical_slot_names-method | Grouping objects |
| vertical_slot_names-method | IPos objects |
| vertical_slot_names-method | IRanges and NormalIRanges objects |
| vertical_slot_names-method | Nested Containment List objects |
| vertical_slot_names-method | Views objects |
| view-summarization-methods | Summarize views on a vector-like object with numeric values |
| viewApply | Summarize views on a vector-like object with numeric values |
| viewApply-method | Summarize views on a vector-like object with numeric values |
| viewMaxs | Summarize views on a vector-like object with numeric values |
| viewMaxs-method | Summarize views on a vector-like object with numeric values |
| viewMeans | Summarize views on a vector-like object with numeric values |
| viewMeans-method | Summarize views on a vector-like object with numeric values |
| viewMins | Summarize views on a vector-like object with numeric values |
| viewMins-method | Summarize views on a vector-like object with numeric values |
| viewRangeMaxs | Summarize views on a vector-like object with numeric values |
| viewRangeMaxs-method | Summarize views on a vector-like object with numeric values |
| viewRangeMins | Summarize views on a vector-like object with numeric values |
| viewRangeMins-method | Summarize views on a vector-like object with numeric values |
| Views | Views objects |
| Views-class | Views objects |
| Views-method | The RleViews class |
| Views-method | List of RleViews |
| ViewsList | List of Views |
| ViewsList-class | List of Views |
| viewSums | Summarize views on a vector-like object with numeric values |
| viewSums-method | Summarize views on a vector-like object with numeric values |
| viewWhichMaxs | Summarize views on a vector-like object with numeric values |
| viewWhichMaxs-method | Summarize views on a vector-like object with numeric values |
| viewWhichMins | Summarize views on a vector-like object with numeric values |
| viewWhichMins-method | Summarize views on a vector-like object with numeric values |
| vmembers | Grouping objects |
| vmembers-method | Grouping objects |
| which-method | Common operations on AtomicList objects |
| which.max-method | Common operations on AtomicList objects |
| which.max-method | Summarize views on a vector-like object with numeric values |
| which.min-method | Common operations on AtomicList objects |
| which.min-method | Summarize views on a vector-like object with numeric values |
| whichAsIRanges | IRanges utility functions |
| whichFirstNotNormal | IPosRanges objects |
| whichFirstNotNormal-method | IPosRanges objects |
| whichFirstNotNormal-method | IntegerRangesList objects |
| width | IPosRanges objects |
| width-method | Grouping objects |
| width-method | IPosRanges objects |
| width-method | IRanges and NormalIRanges objects |
| width-method | List of IRanges and NormalIRanges |
| width-method | IntegerRangesList objects |
| width-method | MaskCollection objects |
| width-method | Nested Containment List objects |
| width-method | Data on ranges |
| width-method | Views objects |
| width-method | List of Views |
| width<- | IPosRanges objects |
| width<--method | IRanges and NormalIRanges objects |
| width<--method | IntegerRangesList objects |
| width<--method | Data on ranges |
| width<--method | Views objects |
| window<--method | Vector objects (old man page) |
| window<-.factor | Vector objects (old man page) |
| window<-.Vector | Vector objects (old man page) |
| window<-.vector | Vector objects (old man page) |
| windows-method | Intra range transformations of an IRanges, IPos, Views, RangesList, or MaskCollection object |
| with-method | Vector objects (old man page) |
| !-method | CompressedList objects |
| %outside% | Finding overlapping ranges |
| %over% | Finding overlapping ranges |
| %within% | Finding overlapping ranges |
| [-method | List of DataFrames |
| [-method | Data on ranges |
| [<--method | List of DataFrames |
| [[-method | List of DataFrames |
| [[-method | Data on ranges |
| [[<--method | List of DataFrames |
| [[<--method | Data on ranges |