| !! |
Man page
|
| !!! |
Man page
|
| %>% |
Man page
|
| %intersect% |
Man page
|
| %setdiff% |
Man page
|
| %union% |
Man page
|
| .bind_rng |
Source code
|
| .check_id_var |
Source code
|
| .find_overlaps |
Source code
|
| .group_rows |
Source code
|
| .join_intersect |
Source code
|
| .join_overlap_left |
Source code
|
| .norm_args_shift |
Source code
|
| .set_id_var |
Source code
|
| BamFileOperator-class |
Man page
|
| DeferredGenomicRanges-class |
Man page
|
| FileOperator-class |
Man page
|
| GroupedGenomicRanges-class |
Man page
|
| GroupedIntegerRanges-class |
Man page
|
| `%intersect%` |
Source code
|
| `%setdiff%` |
Source code
|
| `%union%` |
Source code
|
| add_distance_col |
Source code
|
| add_hits_mcols |
Source code
|
| add_na_seqlevels |
Source code
|
| add_nearest_distance |
Man page
|
| add_nearest_distance_downstream |
Man page
|
| add_nearest_distance_left |
Man page
|
| add_nearest_distance_right |
Man page
|
| add_nearest_distance_upstream |
Man page
|
| add_revmap_grouping |
Source code
|
| all_genomic_ranges |
Source code
|
| all_integer_ranges |
Source code
|
| anchor |
Man page
Source code
|
| anchor.AnchoredGenomicRanges |
Source code
|
| anchor_3p |
Man page
Source code
|
| anchor_3p.GenomicRanges |
Source code
|
| anchor_5p |
Man page
Source code
|
| anchor_5p.GenomicRanges |
Source code
|
| anchor_center |
Man page
Source code
|
| anchor_center.GenomicRanges |
Source code
|
| anchor_center.IntegerRanges |
Source code
|
| anchor_centre |
Man page
Source code
|
| anchor_end |
Man page
Source code
|
| anchor_end.GenomicRanges |
Source code
|
| anchor_end.IntegerRanges |
Source code
|
| anchor_start |
Man page
Source code
|
| anchor_start.GenomicRanges |
Source code
|
| anchor_start.IntegerRanges |
Source code
|
| append_s4_cols |
Source code
|
| arrange |
Man page
|
| arrange.DelegatingGenomicRanges |
Source code
|
| arrange.Ranges |
Man page
Source code
|
| as_granges |
Man page
Source code
|
| as_granges.DataFrame |
Source code
|
| as_granges.data.frame |
Source code
|
| as_granges.default |
Source code
|
| as_iranges |
Man page
Source code
|
| as_iranges.DataFrame |
Source code
|
| as_iranges.data.frame |
Source code
|
| as_iranges.default |
Source code
|
| as_ranges |
Man page
Source code
|
| as_ranges.Rle |
Source code
|
| as_ranges.RleList |
Source code
|
| between |
Man page
Source code
|
| bind_ranges |
Man page
Source code
|
| bioc_generics |
Source code
|
| check_length |
Source code
|
| check_names |
Source code
|
| check_which_label |
Source code
|
| chop_by_gaps |
Man page
Source code
|
| chop_by_gaps.DeferredGenomicRanges |
Source code
|
| chop_by_gaps.GenomicRanges |
Source code
|
| chop_by_introns |
Man page
Source code
|
| chop_by_introns.DeferredGenomicRanges |
Source code
|
| chop_by_introns.GenomicRanges |
Source code
|
| complement_ranges |
Man page
Source code
|
| complement_ranges.GenomicRanges |
Source code
|
| complement_ranges.IntegerRanges |
Source code
|
| complement_ranges_directed |
Man page
Source code
|
| complement_ranges_directed.GenomicRanges |
Source code
|
| compute_coverage |
Man page
Source code
|
| compute_coverage.default |
Source code
|
| count_overlaps |
Man page
Source code
|
| count_overlaps.GenomicRanges |
Man page
Source code
|
| count_overlaps.IntegerRanges |
Man page
Source code
|
| count_overlaps_directed |
Man page
Source code
|
| count_overlaps_directed.GenomicRanges |
Man page
Source code
|
| count_overlaps_within |
Man page
Source code
|
| count_overlaps_within.GenomicRanges |
Man page
Source code
|
| count_overlaps_within.IntegerRanges |
Man page
Source code
|
| count_overlaps_within_directed |
Man page
Source code
|
| count_overlaps_within_directed.GenomicRanges |
Man page
Source code
|
| disjoin_ranges |
Man page
Source code
|
| disjoin_ranges.GenomicRanges |
Source code
|
| disjoin_ranges.GroupedGenomicRanges |
Source code
|
| disjoin_ranges.GroupedIntegerRanges |
Source code
|
| disjoin_ranges.IntegerRanges |
Source code
|
| disjoin_ranges_directed |
Man page
Source code
|
| disjoin_ranges_directed.GenomicRanges |
Source code
|
| disjoin_ranges_directed.GroupedGenomicRanges |
Source code
|
| expand_by_hits |
Source code
|
| expand_ranges |
Man page
Source code
|
| expand_rng_by_cigar |
Source code
|
| filter |
Man page
|
| filter-ranges |
Man page
|
| filter.BamFileOperator |
Source code
|
| filter.DeferredGenomicRanges |
Source code
|
| filter.DelegatingGenomicRanges |
Source code
|
| filter.GroupedGenomicRanges |
Source code
|
| filter.Ranges |
Man page
Source code
|
| filter_by_non_overlaps |
Man page
Source code
|
| filter_by_non_overlaps.GenomicRanges |
Source code
|
| filter_by_non_overlaps.IntegerRanges |
Source code
|
| filter_by_non_overlaps_directed |
Man page
Source code
|
| filter_by_non_overlaps_directed.GenomicRanges |
Source code
|
| filter_by_overlaps |
Man page
Source code
|
| filter_by_overlaps.BamFileOperator |
Source code
|
| filter_by_overlaps.DeferredGenomicRanges |
Source code
|
| filter_by_overlaps.GenomicRanges |
Source code
|
| filter_by_overlaps.IntegerRanges |
Source code
|
| filter_by_overlaps_directed |
Man page
Source code
|
| filter_by_overlaps_directed.GenomicRanges |
Source code
|
| filter_grp |
Source code
|
| filter_rng |
Source code
|
| find_overlaps |
Man page
Source code
|
| find_overlaps.GenomicRanges |
Man page
Source code
|
| find_overlaps.IntegerRanges |
Man page
Source code
|
| find_overlaps_directed |
Man page
Source code
|
| find_overlaps_directed.GenomicRanges |
Man page
Source code
|
| find_overlaps_within |
Man page
Source code
|
| find_overlaps_within.GenomicRanges |
Man page
Source code
|
| find_overlaps_within.IntegerRanges |
Man page
Source code
|
| find_overlaps_within_directed |
Man page
Source code
|
| find_overlaps_within_directed.GenomicRanges |
Man page
Source code
|
| flank_downstream |
Man page
Source code
|
| flank_left |
Man page
Source code
|
| flank_right |
Man page
Source code
|
| flank_upstream |
Man page
Source code
|
| galn_to_grng |
Source code
|
| generate_slice |
Source code
|
| genome_info |
Man page
Source code
|
| get_genome_info |
Man page
Source code
|
| get_genome_info.BamFileOperator |
Source code
|
| get_genome_info.DeferredGenomicRanges |
Source code
|
| get_genome_info.Seqinfo |
Source code
|
| get_genome_info.default |
Source code
|
| get_hits_downstream |
Source code
|
| get_hits_left |
Source code
|
| get_hits_right |
Source code
|
| get_hits_upstream |
Source code
|
| get_list_cols |
Source code
|
| grng_construct |
Source code
|
| group_by |
Man page
|
| group_by-ranges |
Man page
|
| group_by.DeferredGenomicRanges |
Source code
|
| group_by.GenomicRanges |
Man page
Source code
|
| group_by.GroupedGenomicRanges |
Source code
|
| group_by.IntegerRanges |
Source code
|
| group_by_overlaps |
Man page
Source code
|
| group_by_overlaps.GenomicRanges |
Man page
Source code
|
| group_by_overlaps.IntegerRanges |
Man page
Source code
|
| group_by_revmap |
Source code
|
| group_data.GroupedGenomicRanges |
Source code
|
| group_data.Ranges |
Source code
|
| group_indices.GroupedGenomicRanges |
Source code
|
| group_indices.Ranges |
Source code
|
| group_keys.GroupedGenomicRanges |
Source code
|
| group_keys.Ranges |
Source code
|
| group_split.GroupedGenomicRanges |
Source code
|
| group_vars |
Man page
|
| group_vars.GroupedGenomicRanges |
Source code
|
| group_vars.Ranges |
Source code
|
| groups |
Man page
|
| groups.GroupedGenomicRanges |
Man page
Source code
|
| groups.GroupedIntegerRanges |
Man page
|
| groups.Ranges |
Source code
|
| hits_nearest |
Source code
|
| hits_nearest.GenomicRanges |
Source code
|
| hits_nearest.IRanges |
Source code
|
| hits_nearest_downstream |
Source code
|
| hits_nearest_downstream.GenomicRanges |
Source code
|
| hits_nearest_left |
Source code
|
| hits_nearest_left.GenomicRanges |
Source code
|
| hits_nearest_left.IRanges |
Source code
|
| hits_nearest_right |
Source code
|
| hits_nearest_right.GenomicRanges |
Source code
|
| hits_nearest_right.IRanges |
Source code
|
| hits_nearest_upstream |
Source code
|
| hits_nearest_upstream.GenomicRanges |
Source code
|
| id_to_column |
Man page
Source code
|
| initialize_AnchoredRanges |
Source code
|
| initialize_GroupedRanges |
Source code
|
| intersect_ranges |
Man page
Source code
|
| intersect_ranges.GenomicRanges |
Source code
|
| intersect_ranges.IntegerRanges |
Source code
|
| intersect_ranges_directed |
Man page
Source code
|
| intersect_ranges_directed.GenomicRanges |
Source code
|
| interweave |
Man page
Source code
|
| irng_construct |
Source code
|
| is_empty_delegate |
Source code
|
| is_empty_quos |
Source code
|
| join_follow |
Man page
Source code
|
| join_follow.GenomicRanges |
Source code
|
| join_follow.IntegerRanges |
Source code
|
| join_follow_left |
Man page
Source code
|
| join_follow_left.GenomicRanges |
Source code
|
| join_follow_left.IntegerRanges |
Source code
|
| join_follow_upstream |
Man page
Source code
|
| join_follow_upstream.GenomicRanges |
Source code
|
| join_nearest |
Man page
Source code
|
| join_nearest_downstream |
Man page
Source code
|
| join_nearest_downstream.GenomicRanges |
Source code
|
| join_nearest_left |
Man page
Source code
|
| join_nearest_right |
Man page
Source code
|
| join_nearest_upstream |
Man page
Source code
|
| join_nearest_upstream.GenomicRanges |
Source code
|
| join_overlap_inner |
Man page
Source code
|
| join_overlap_inner_directed |
Man page
Source code
|
| join_overlap_inner_within |
Man page
Source code
|
| join_overlap_inner_within_directed |
Man page
Source code
|
| join_overlap_intersect |
Man page
Source code
|
| join_overlap_intersect.GenomicRanges |
Source code
|
| join_overlap_intersect.IntegerRanges |
Source code
|
| join_overlap_intersect_directed |
Man page
Source code
|
| join_overlap_intersect_directed.GenomicRanges |
Source code
|
| join_overlap_intersect_within |
Man page
Source code
|
| join_overlap_intersect_within.GenomicRanges |
Source code
|
| join_overlap_intersect_within.IntegerRanges |
Source code
|
| join_overlap_intersect_within_directed |
Man page
Source code
|
| join_overlap_intersect_within_directed.GenomicRanges |
Source code
|
| join_overlap_left |
Man page
Source code
|
| join_overlap_left.GenomicRanges |
Source code
|
| join_overlap_left.IntegerRanges |
Source code
|
| join_overlap_left_directed |
Man page
Source code
|
| join_overlap_left_directed.GenomicRanges |
Source code
|
| join_overlap_left_within |
Man page
Source code
|
| join_overlap_left_within.GenomicRanges |
Source code
|
| join_overlap_left_within.IntegerRanges |
Source code
|
| join_overlap_left_within_directed |
Man page
Source code
|
| join_overlap_left_within_directed.GenomicRanges |
Source code
|
| join_overlap_self |
Man page
Source code
|
| join_overlap_self.GenomicRanges |
Source code
|
| join_overlap_self_directed |
Man page
Source code
|
| join_overlap_self_directed.GenomicRanges |
Source code
|
| join_overlap_self_within |
Man page
Source code
|
| join_overlap_self_within.GenomicRanges |
Source code
|
| join_overlap_self_within_directed |
Man page
Source code
|
| join_overlap_self_within_directed.GenomicRanges |
Source code
|
| join_precede |
Man page
Source code
|
| join_precede.GenomicRanges |
Source code
|
| join_precede.IntegerRanges |
Source code
|
| join_precede_downstream |
Man page
Source code
|
| join_precede_downstream.GenomicRanges |
Source code
|
| join_precede_right |
Man page
Source code
|
| join_precede_right.GenomicRanges |
Source code
|
| join_precede_right.IntegerRanges |
Source code
|
| load_delegate |
Source code
|
| load_genomic_file |
Source code
|
| load_genomic_file.BamFileOperator |
Source code
|
| make_add_nearest_distance |
Source code
|
| make_hits |
Source code
|
| make_key_rle |
Source code
|
| make_mcols |
Source code
|
| make_revmap_rle |
Source code
|
| mcols_overlaps_update |
Source code
|
| mutate |
Man page
|
| mutate.DeferredGenomicRanges |
Source code
|
| mutate.DelegatingGenomicRanges |
Source code
|
| mutate.GroupedGenomicRanges |
Source code
|
| mutate.Ranges |
Man page
Source code
|
| mutate_core |
Source code
|
| mutate_grp |
Source code
|
| mutate_mcols |
Source code
|
| mutate_rng |
Source code
|
| n |
Man page
Source code
|
| n_distinct |
Man page
Source code
|
| na_cols |
Source code
|
| na_dframe |
Source code
|
| na_ranges |
Source code
|
| names_to_column |
Man page
Source code
|
| new_DeferredGenomicRanges |
Source code
|
| new_anchored_gr |
Source code
|
| new_anchored_ir |
Source code
|
| new_bam_ops |
Source code
|
| new_grouping |
Source code
|
| norm_args_reader |
Source code
|
| norm_args_reader_gff |
Source code
|
| overscope_eval_update |
Source code
|
| overscope_ranges |
Man page
Source code
|
| overscope_ranges.DelegatingGenomicRanges |
Source code
|
| overscope_ranges.GroupedGenomicRanges |
Source code
|
| overscope_ranges.Ranges |
Source code
|
| pair_follow |
Man page
Source code
|
| pair_follow.GenomicRanges |
Source code
|
| pair_follow.IntegerRanges |
Source code
|
| pair_nearest |
Man page
Source code
|
| pair_nearest.GenomicRanges |
Source code
|
| pair_nearest.IntegerRanges |
Source code
|
| pair_overlaps |
Man page
Source code
|
| pair_overlaps.GenomicRanges |
Source code
|
| pair_overlaps.IntegerRanges |
Source code
|
| pair_precede |
Man page
Source code
|
| pair_precede.GenomicRanges |
Source code
|
| pair_precede.IntegerRanges |
Source code
|
| paired_alignments |
Source code
|
| partition_rng |
Source code
|
| plyranges |
Man page
|
| plyranges-package |
Man page
|
| quos_set_env |
Source code
|
| ranges-info |
Man page
|
| read_bam |
Man page
Source code
|
| read_bed |
Man page
Source code
|
| read_bed_graph |
Man page
Source code
|
| read_bigwig |
Man page
Source code
|
| read_gff |
Man page
Source code
|
| read_gff1 |
Man page
Source code
|
| read_gff2 |
Man page
Source code
|
| read_gff3 |
Man page
Source code
|
| read_narrowpeaks |
Man page
Source code
|
| read_wig |
Man page
Source code
|
| reduce_by_grp |
Source code
|
| reduce_ranges |
Man page
Source code
|
| reduce_ranges.GenomicRanges |
Source code
|
| reduce_ranges.GroupedGenomicRanges |
Source code
|
| reduce_ranges.GroupedIntegerRanges |
Source code
|
| reduce_ranges.IntegerRanges |
Source code
|
| reduce_ranges_directed |
Man page
Source code
|
| reduce_ranges_directed.GenomicRanges |
Source code
|
| reduce_ranges_directed.GroupedGenomicRanges |
Source code
|
| reduce_single |
Source code
|
| reexports |
Man page
|
| remove_names |
Man page
Source code
|
| resize_by_strand |
Source code
|
| rng_arrange |
Source code
|
| sample_n.Ranges |
Source code
|
| scope_plyranges |
Source code
|
| select |
Man page
|
| select.BamFileOperator |
Source code
|
| select.DeferredGenomicRanges |
Source code
|
| select.DelegatingGenomicRanges |
Source code
|
| select.Ranges |
Man page
Source code
|
| select_rng |
Source code
|
| set_distance_col |
Source code
|
| set_dots_named |
Source code
|
| set_dots_unnamed |
Source code
|
| set_end |
Man page
Source code
|
| set_end.Ranges |
Source code
|
| set_genome_info |
Man page
Source code
|
| set_seqnames |
Man page
Source code
|
| set_seqnames.GenomicRanges |
Source code
|
| set_start |
Man page
Source code
|
| set_start.Ranges |
Source code
|
| set_strand |
Man page
Source code
|
| set_strand.GenomicRanges |
Source code
|
| set_width |
Man page
Source code
|
| set_width.AnchoredGenomicRanges |
Source code
|
| set_width.AnchoredIntegerRanges |
Source code
|
| set_width.Ranges |
Source code
|
| setdiff_ranges |
Man page
Source code
|
| setdiff_ranges.GenomicRanges |
Source code
|
| setdiff_ranges.IntegerRanges |
Source code
|
| setdiff_ranges_directed |
Man page
Source code
|
| setdiff_ranges_directed.GenomicRanges |
Source code
|
| shift_downstream |
Man page
Source code
|
| shift_left |
Man page
Source code
|
| shift_right |
Man page
Source code
|
| shift_upstream |
Man page
Source code
|
| show_AnchoredRanges |
Source code
|
| show_GroupedRanges |
Source code
|
| slice |
Man page
|
| slice.GroupedGenomicRanges |
Man page
Source code
|
| slice.GroupedIntegerRanges |
Man page
|
| slice.Ranges |
Man page
Source code
|
| slide_ranges |
Man page
Source code
|
| slide_ranges.Ranges |
Source code
|
| span |
Man page
Source code
|
| stretch |
Man page
Source code
|
| stretch.AnchoredGenomicRanges |
Source code
|
| stretch.AnchoredIntegerRanges |
Source code
|
| stretch.Ranges |
Source code
|
| stretch_by_strand |
Source code
|
| stretch_center |
Source code
|
| summarise |
Man page
|
| summarise.DeferredGenomicRanges |
Source code
|
| summarise.Ranges |
Man page
|
| summarize |
Man page
|
| summarize_rng |
Source code
|
| tbl_vars.GenomicRanges |
Source code
|
| tbl_vars.Ranges |
Source code
|
| tile_ranges |
Man page
Source code
|
| tile_ranges.Ranges |
Source code
|
| unanchor |
Man page
Source code
|
| unanchor.AnchoredGenomicRanges |
Source code
|
| ungroup |
Man page
|
| ungroup.GroupedGenomicRanges |
Man page
Source code
|
| ungroup.Ranges |
Source code
|
| union_ranges |
Man page
Source code
|
| union_ranges.GenomicRanges |
Source code
|
| union_ranges.IntegerRanges |
Source code
|
| union_ranges_directed |
Man page
Source code
|
| union_ranges_directed.GenomicRanges |
Source code
|
| unpaired_alignments |
Source code
|
| unsplice |
Source code
|
| validAnchoredRanges |
Source code
|
| validGroupedRanges |
Source code
|
| valid_flag_filters |
Source code
|
| write_bed |
Man page
Source code
|
| write_bed_graph |
Man page
Source code
|
| write_bigwig |
Man page
Source code
|
| write_gff |
Man page
Source code
|
| write_gff1 |
Man page
Source code
|
| write_gff2 |
Man page
Source code
|
| write_gff3 |
Man page
Source code
|
| write_narrowpeaks |
Man page
Source code
|
| write_wig |
Man page
Source code
|
| zero_cols |
Source code
|
