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A B C D E F G I L M N O P R S T U V W misc
| absoluteRanges | Transform genomic ranges into "absolute" ranges |
| as.character-method | GRanges objects |
| as.data.frame-method | Memory-efficient representation of genomic positions |
| as.data.frame-method | GRanges objects |
| as.data.frame.GPos | Memory-efficient representation of genomic positions |
| as.factor-method | GRanges objects |
| bindAsGRanges | Manipulating genomic variables |
| bindROWS-method | GRanges objects |
| binnedAverage | Manipulating genomic variables |
| checkConstraint | Enforcing constraints thru Constraint objects |
| class:CompressedGenomicRangesList | GenomicRangesList objects |
| class:CompressedGRangesList | GRangesList objects |
| class:Constraint | Enforcing constraints thru Constraint objects |
| class:Constraint_OR_NULL | Enforcing constraints thru Constraint objects |
| class:DelegatingGenomicRanges | DelegatingGenomicRanges objects |
| class:GenomicPos | GRanges objects |
| class:GenomicRanges | GRanges objects |
| class:GenomicRangesList | GenomicRangesList objects |
| class:GenomicRanges_OR_GenomicRangesList | GenomicRangesList objects |
| class:GenomicRanges_OR_GRangesList | GRangesList objects |
| class:GNCList | GNCList objects |
| class:GPos | Memory-efficient representation of genomic positions |
| class:GRanges | GRanges objects |
| class:GRangesFactor | GRangesFactor objects |
| class:GRangesList | GRangesList objects |
| class:IRanges_OR_IPos | GRanges objects |
| class:SimpleGenomicRangesList | GenomicRangesList objects |
| class:SimpleGRangesList | GRangesList objects |
| class:StitchedGPos | Memory-efficient representation of genomic positions |
| class:UnstitchedGPos | Memory-efficient representation of genomic positions |
| coerce-method | GNCList objects |
| coerce-method | Memory-efficient representation of genomic positions |
| coerce-method | GRanges objects |
| coerce-method | GRangesFactor objects |
| coerce-method | GRangesList objects |
| coerce-method | Manipulating genomic variables |
| coerce-method | Make a GRanges object from a data.frame or DataFrame |
| CompressedGenomicRangesList | GenomicRangesList objects |
| CompressedGenomicRangesList-class | GenomicRangesList objects |
| CompressedGRangesList | GRangesList objects |
| CompressedGRangesList-class | GRangesList objects |
| Constraint | Enforcing constraints thru Constraint objects |
| constraint | Enforcing constraints thru Constraint objects |
| Constraint-class | Enforcing constraints thru Constraint objects |
| constraint<- | Enforcing constraints thru Constraint objects |
| Constraints | Enforcing constraints thru Constraint objects |
| Constraint_OR_NULL | Enforcing constraints thru Constraint objects |
| Constraint_OR_NULL-class | Enforcing constraints thru Constraint objects |
| countOverlaps | Finding overlapping genomic ranges |
| countOverlaps-method | Finding overlapping genomic ranges |
| coverage | Coverage of a GRanges or GRangesList object |
| coverage-method | Coverage of a GRanges or GRangesList object |
| coverage-methods | Coverage of a GRanges or GRangesList object |
| DelegatingGenomicRanges-class | DelegatingGenomicRanges objects |
| disjoin | Inter range transformations of a GRanges or GRangesList object |
| disjoin-method | Inter range transformations of a GRanges or GRangesList object |
| disjointBins | Inter range transformations of a GRanges or GRangesList object |
| disjointBins-method | Inter range transformations of a GRanges or GRangesList object |
| distance | Finding the nearest genomic range/position neighbor |
| distance-method | Finding the nearest genomic range/position neighbor |
| distanceToNearest | Finding the nearest genomic range/position neighbor |
| distanceToNearest-method | Finding the nearest genomic range/position neighbor |
| duplicated-method | Comparing and ordering genomic ranges |
| duplicated.GenomicRanges | Comparing and ordering genomic ranges |
| elementMetadata-method | GenomicRangesList objects |
| elementMetadata<--method | GenomicRangesList objects |
| end-method | GNCList objects |
| end-method | GRangesFactor objects |
| end<--method | GRanges objects |
| end<--method | GenomicRangesList objects |
| extractROWS-method | GenomicRangesList objects |
| FactorToClass-method | GRangesFactor objects |
| findOverlaps | Finding overlapping genomic ranges |
| findOverlaps-method | Finding overlapping genomic ranges |
| findOverlaps-methods | Finding overlapping genomic ranges |
| flank | Intra range transformations of a GRanges or GRangesList object |
| flank-method | Intra range transformations of a GRanges or GRangesList object |
| follow | Finding the nearest genomic range/position neighbor |
| follow-method | Finding the nearest genomic range/position neighbor |
| from_GPos_to_GRanges | Memory-efficient representation of genomic positions |
| gaps | Inter range transformations of a GRanges or GRangesList object |
| gaps-method | Inter range transformations of a GRanges or GRangesList object |
| genomic-range-squeezers | Squeeze the genomic ranges out of a range-based object |
| GenomicPos | GRanges objects |
| GenomicPos-class | GRanges objects |
| GenomicRanges | GRanges objects |
| GenomicRanges-class | GRanges objects |
| GenomicRanges-comparison | Comparing and ordering genomic ranges |
| GenomicRangesList | GenomicRangesList objects |
| GenomicRangesList-class | GenomicRangesList objects |
| GenomicRanges_OR_GenomicRangesList | GenomicRangesList objects |
| GenomicRanges_OR_GenomicRangesList-class | GenomicRangesList objects |
| GenomicRanges_OR_GRangesList | GRangesList objects |
| GenomicRanges_OR_GRangesList-class | GRangesList objects |
| GenomicRanges_OR_missing-class | GRanges objects |
| genomicvariables | Manipulating genomic variables |
| genomicvars | Manipulating genomic variables |
| getListElement-method | GRanges objects |
| getListElement-method | GenomicRangesList objects |
| GNCList | GNCList objects |
| GNCList-class | GNCList objects |
| GPos | Memory-efficient representation of genomic positions |
| GPos-class | Memory-efficient representation of genomic positions |
| GRanges | GRanges objects |
| granges | Squeeze the genomic ranges out of a range-based object |
| GRanges-class | GRanges objects |
| granges-method | GNCList objects |
| granges-method | GRanges objects |
| granges-method | GRangesFactor objects |
| GRangesFactor | GRangesFactor objects |
| GRangesFactor-class | GRangesFactor objects |
| GRangesList | GRangesList objects |
| GRangesList-class | GRangesList objects |
| grglist | Squeeze the genomic ranges out of a range-based object |
| grglist-method | Squeeze the genomic ranges out of a range-based object |
| inter-range-methods | Inter range transformations of a GRanges or GRangesList object |
| intersect | Set operations on genomic ranges |
| intersect-method | Set operations on genomic ranges |
| intra-range-methods | Intra range transformations of a GRanges or GRangesList object |
| invertStrand-method | Strand utilities |
| IRanges_OR_IPos | GRanges objects |
| IRanges_OR_IPos-class | GRanges objects |
| is.unsorted-method | Comparing and ordering genomic ranges |
| isDisjoint | Inter range transformations of a GRanges or GRangesList object |
| isDisjoint-method | Inter range transformations of a GRanges or GRangesList object |
| isSmallGenome | Transform genomic ranges into "absolute" ranges |
| length-method | GNCList objects |
| length-method | GRanges objects |
| length-method | GenomicRangesList objects |
| makeGRangesFromDataFrame | Make a GRanges object from a data.frame or DataFrame |
| makeGRangesListFromDataFrame | Make a GRangesList object from a data.frame or DataFrame |
| makeGRangesListFromFeatureFragments | GRangesList objects |
| match-method | Comparing and ordering genomic ranges |
| mcolAsRleList | Manipulating genomic variables |
| names-method | GNCList objects |
| names-method | GRanges objects |
| names-method | GenomicRangesList objects |
| names<--method | GRanges objects |
| names<--method | GenomicRangesList objects |
| narrow-method | Intra range transformations of a GRanges or GRangesList object |
| nearest | Finding the nearest genomic range/position neighbor |
| nearest-method | Finding the nearest genomic range/position neighbor |
| nearest-methods | Finding the nearest genomic range/position neighbor |
| order-method | Comparing and ordering genomic ranges |
| overlapsAny | Finding overlapping genomic ranges |
| pcompare | Comparing and ordering genomic ranges |
| pcompare-method | Comparing and ordering genomic ranges |
| pgap | Set operations on genomic ranges |
| pgap-method | Set operations on genomic ranges |
| phicoef | Calculate the "phi coefficient" between two binary variables |
| pintersect | Set operations on genomic ranges |
| pintersect-method | Set operations on genomic ranges |
| pos-method | Memory-efficient representation of genomic positions |
| pos-method | GRangesFactor objects |
| precede | Finding the nearest genomic range/position neighbor |
| precede-method | Finding the nearest genomic range/position neighbor |
| promoters | Intra range transformations of a GRanges or GRangesList object |
| promoters-method | Intra range transformations of a GRanges or GRangesList object |
| psetdiff | Set operations on genomic ranges |
| psetdiff-method | Set operations on genomic ranges |
| punion | Set operations on genomic ranges |
| punion-method | Set operations on genomic ranges |
| range | Inter range transformations of a GRanges or GRangesList object |
| range-method | Inter range transformations of a GRanges or GRangesList object |
| ranges-method | DelegatingGenomicRanges objects |
| ranges-method | GNCList objects |
| ranges-method | GRanges objects |
| ranges-method | GRangesFactor objects |
| ranges-method | GRangesList objects |
| ranges<--method | GRanges objects |
| ranges<--method | GRangesList objects |
| rank-method | Comparing and ordering genomic ranges |
| reduce | Inter range transformations of a GRanges or GRangesList object |
| reduce-method | Inter range transformations of a GRanges or GRangesList object |
| relativeRanges | Transform genomic ranges into "absolute" ranges |
| relistToClass-method | GRangesList objects |
| resize | Intra range transformations of a GRanges or GRangesList object |
| resize-method | Intra range transformations of a GRanges or GRangesList object |
| restrict | Intra range transformations of a GRanges or GRangesList object |
| restrict-method | Intra range transformations of a GRanges or GRangesList object |
| score-method | GRanges objects |
| score-method | GenomicRangesList objects |
| score<--method | GRanges objects |
| score<--method | GenomicRangesList objects |
| selfmatch-method | Comparing and ordering genomic ranges |
| seqinfo-method | DelegatingGenomicRanges objects |
| seqinfo-method | GNCList objects |
| seqinfo-method | GRanges objects |
| seqinfo-method | GRangesFactor objects |
| seqinfo-method | GenomicRangesList objects |
| seqinfo<--method | GRanges objects |
| seqinfo<--method | GenomicRangesList objects |
| seqnames-method | DelegatingGenomicRanges objects |
| seqnames-method | GNCList objects |
| seqnames-method | GRanges objects |
| seqnames-method | GRangesFactor objects |
| seqnames-method | GenomicRangesList objects |
| seqnames<--method | GRanges objects |
| seqnames<--method | GenomicRangesList objects |
| setdiff | Set operations on genomic ranges |
| setdiff-method | Set operations on genomic ranges |
| setops-methods | Set operations on genomic ranges |
| shift-method | Intra range transformations of a GRanges or GRangesList object |
| show-method | Memory-efficient representation of genomic positions |
| show-method | GRanges objects |
| show-method | GRangesFactor objects |
| show-method | GenomicRangesList objects |
| SimpleGenomicRangesList | GenomicRangesList objects |
| SimpleGenomicRangesList-class | GenomicRangesList objects |
| SimpleGRangesList | GRangesList objects |
| SimpleGRangesList-class | GRangesList objects |
| slidingWindows | Generate windows for a GenomicRanges |
| slidingWindows-method | Generate windows for a GenomicRanges |
| sort-method | Comparing and ordering genomic ranges |
| sort.GenomicRanges | Comparing and ordering genomic ranges |
| start-method | GNCList objects |
| start-method | GRanges objects |
| start-method | GRangesFactor objects |
| start<--method | GRanges objects |
| start<--method | GenomicRangesList objects |
| StitchedGPos | Memory-efficient representation of genomic positions |
| StitchedGPos-class | Memory-efficient representation of genomic positions |
| strand-method | DelegatingGenomicRanges objects |
| strand-method | GNCList objects |
| strand-method | GRanges objects |
| strand-method | GRangesFactor objects |
| strand-method | GenomicRangesList objects |
| strand-method | Strand utilities |
| strand-utils | Strand utilities |
| strand<--method | GRanges objects |
| strand<--method | GenomicRangesList objects |
| strand<--method | Strand utilities |
| subsetByOverlaps | Finding overlapping genomic ranges |
| summary-method | Memory-efficient representation of genomic positions |
| summary-method | GRanges objects |
| summary.GenomicRanges | GRanges objects |
| summary.GPos | Memory-efficient representation of genomic positions |
| tile | Generate windows for a GenomicRanges |
| tile-method | Generate windows for a GenomicRanges |
| tile-methods | Generate windows for a GenomicRanges |
| tileGenome | Put (virtual) tiles on a given genome |
| trim | Intra range transformations of a GRanges or GRangesList object |
| trim-method | Intra range transformations of a GRanges or GRangesList object |
| union | Set operations on genomic ranges |
| union-method | Set operations on genomic ranges |
| unlist-method | GenomicRangesList objects |
| UnstitchedGPos | Memory-efficient representation of genomic positions |
| UnstitchedGPos-class | Memory-efficient representation of genomic positions |
| update-method | GRanges objects |
| updateObject-method | Memory-efficient representation of genomic positions |
| updateObject-method | GRanges objects |
| updateObject-method | GenomicRangesList objects |
| update_ranges-method | Intra range transformations of a GRanges or GRangesList object |
| vertical_slot_names-method | GRanges objects |
| width-method | GNCList objects |
| width-method | GRanges objects |
| width-method | GRangesFactor objects |
| width<--method | GRanges objects |
| width<--method | GenomicRangesList objects |
| $-method | GRanges objects |
| $<--method | GRanges objects |
| [-method | GRanges objects |
| [-method | GRangesList objects |
| [<--method | GRangesList objects |