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| genomeIntervals-package | Operations on genomic intervals |
| $,Genome_intervals-method | Class "Genome\_intervals" |
| $<-,Genome_intervals-method | Class "Genome\_intervals" |
| annotation,Genome_intervals-method | Class "Genome\_intervals" |
| annotation<-,Genome_intervals,ANY-method | Class "Genome\_intervals" |
| c | Combine genome intervals objects |
| c.Genome_intervals | Combine genome intervals objects |
| c.Genome_intervals_stranded | Combine genome intervals objects |
| coerce,Genome_intervals,character-method | Class "Genome\_intervals" |
| coerce,Genome_intervals,Intervals_full-method | Class "Genome\_intervals" |
| coerce,Genome_intervals_stranded,character-method | Class "Genome\_intervals\_stranded" |
| core_annotated | Genome intervals with minimal annotation |
| core_annotated,Genome_intervals-method | Genome intervals with minimal annotation |
| core_annotated,Genome_intervals_stranded-method | Genome intervals with minimal annotation |
| distance_to_nearest | Distance in bases to the closest interval(s) |
| distance_to_nearest,Genome_intervals,Genome_intervals-method | Distance in bases to the closest interval(s) |
| distance_to_nearest,Genome_intervals_stranded,Genome_intervals_stranded-method | Distance in bases to the closest interval(s) |
| genomeIntervals | Operations on genomic intervals |
| Genome_intervals-class | Class "Genome\_intervals" |
| Genome_intervals_stranded-class | Class "Genome\_intervals\_stranded" |
| gen_ints | Genome Intervals examples |
| getGffAttribute | Pull one or more key/value pairs from gffAttributes strings |
| i | Genome Intervals examples |
| interval_complement | Genome interval set operations |
| interval_complement,Genome_intervals-method | Genome interval set operations |
| interval_complement,Genome_intervals_stranded-method | Genome interval set operations |
| interval_intersection | Genome interval set operations |
| interval_intersection,Genome_intervals-method | Genome interval set operations |
| interval_intersection,Genome_intervals_stranded-method | Genome interval set operations |
| interval_overlap | Assess overlap from one set of genomic intervals to another |
| interval_overlap,ANY,missing-method | Assess overlap from one set of genomic intervals to another |
| interval_overlap,Genome_intervals,Genome_intervals-method | Assess overlap from one set of genomic intervals to another |
| interval_overlap,Genome_intervals_stranded,Genome_intervals_stranded-method | Assess overlap from one set of genomic intervals to another |
| interval_overlap,missing,ANY-method | Assess overlap from one set of genomic intervals to another |
| interval_union | Genome interval set operations |
| interval_union,Genome_intervals-method | Genome interval set operations |
| interval_union,Genome_intervals_stranded-method | Genome interval set operations |
| inter_base | Class "Genome\_intervals" |
| inter_base,Genome_intervals-method | Class "Genome\_intervals" |
| inter_base<- | Class "Genome\_intervals" |
| inter_base<-,Genome_intervals-method | Class "Genome\_intervals" |
| j | Genome Intervals examples |
| k | Genome Intervals examples |
| parseGffAttributes | Parse out the gffAttributes column of a Genome\_intervals object |
| readGff3 | Make a Genome\_intervals\_stranded object from a GFF file |
| seq_name | Class "Genome\_intervals" |
| seq_name,Genome_intervals-method | Class "Genome\_intervals" |
| seq_name<- | Class "Genome\_intervals" |
| seq_name<-,Genome_intervals-method | Class "Genome\_intervals" |
| show,Genome_intervals-method | Class "Genome\_intervals" |
| size,Genome_intervals-method | Class "Genome\_intervals" |
| strand | Class "Genome\_intervals\_stranded" |
| strand,Genome_intervals_stranded-method | Class "Genome\_intervals\_stranded" |
| strand<- | Class "Genome\_intervals\_stranded" |
| strand<-,Genome_intervals_stranded-method | Class "Genome\_intervals\_stranded" |
| type<-,Genome_intervals-method | Class "Genome\_intervals" |
| [,Genome_intervals-method | Class "Genome\_intervals" |
| [<-,Genome_intervals,ANY,missing,Genome_intervals-method | Class "Genome\_intervals" |
| [[,Genome_intervals-method | Class "Genome\_intervals" |
| [[<-,Genome_intervals-method | Class "Genome\_intervals" |