API for gggenomes
A Grammar of Graphics for Comparative Genomics
| Global functions | |
|---|---|
| %<>% | Man page |
| %>% | Man page |
| GeomFeatText | Man page |
| PositionPile | Man page |
| PositionSixframe | Man page |
| PositionStrand | Man page |
| PositionStrandpile | Man page |
| add_class | Man page Source code |
| add_clusters | Man page Source code |
| add_clusters.gggenomes | Source code |
| add_clusters.gggenomes_layout | Source code |
| add_feat_focus_scaffold | Source code |
| add_feat_layout_scaffold | Source code |
| add_feat_tracks | Source code |
| add_feats | Man page Source code |
| add_feats.gggenomes | Source code |
| add_feats.gggenomes_layout | Source code |
| add_link_focus_scaffold | Source code |
| add_link_layout_scaffold | Source code |
| add_link_tracks | Source code |
| add_links | Man page Source code |
| add_links.gggenomes | Source code |
| add_links.gggenomes_layout | Source code |
| add_mrna_for_exons | Source code |
| add_seqs | Man page Source code |
| add_seqs.gggenomes | Source code |
| add_seqs.gggenomes_layout | Source code |
| add_subfeat_tracks | Source code |
| add_subfeats | Man page Source code |
| add_subfeats.gggenomes | Source code |
| add_subfeats.gggenomes_layout | Source code |
| add_sublink_tracks | Source code |
| add_sublinks | Man page Source code |
| add_sublinks.gggenomes | Source code |
| add_sublinks.gggenomes_layout | Source code |
| add_tracks | Man page |
| aes_intersect | Source code |
| aes_nudge_by_strand | Source code |
| anchor | Source code |
| as_bounds | Source code Source code |
| as_bounds.numeric | Source code Source code |
| as_feats | Man page Source code |
| as_feats.default | Source code |
| as_feats.tbl_df | Source code |
| as_links | Man page Source code |
| as_links.default | Source code |
| as_links.tbl_df | Source code |
| as_orig_links | Source code |
| as_seqs | Man page Source code |
| as_seqs.default | Source code |
| as_seqs.tbl_df | Man page Source code |
| as_subfeats | Man page Source code |
| as_subfeats.default | Source code |
| as_subfeats.tbl_df | Man page Source code |
| as_sublinks | Man page Source code |
| as_sublinks.default | Source code |
| as_sublinks.tbl_df | Man page Source code |
| as_tibble.GRanges | Source code |
| as_tracks | Source code |
| bins | Man page Source code |
| check_strand | Man page Source code |
| check_strand.character | Source code |
| check_strand.factor | Source code |
| check_strand.logical | Source code |
| check_strand.numeric | Source code |
| cluster2sublinks | Source code |
| combine_strands | Man page Source code |
| combine_two_strands | Source code |
| comma | Source code |
| compute_just | Source code |
| compute_loci | Source code |
| coords2introns | Source code |
| def_formats | Man page Source code |
| def_formats_rd | Source code |
| def_names | Man page Source code |
| def_names_rd | Source code |
| def_parser | Source code |
| def_types | Man page Source code |
| dim.gggenomes_layout | Man page Source code |
| drop_feat_layout | Man page Source code |
| drop_layout | Man page Source code |
| drop_link_layout | Man page Source code |
| drop_seq_layout | Man page Source code |
| dummy | Source code |
| emale_ava | Man page |
| emale_cogs | Man page |
| emale_gc | Man page |
| emale_genes | Man page |
| emale_ngaros | Man page |
| emale_prot_ava | Man page |
| emale_seqs | Man page |
| emale_tirs | Man page |
| ex | Man page Source code |
| exon_polys | Source code |
| exon_spans | Source code |
| extract_type | Source code |
| feats | Man page Source code |
| feats0 | Man page Source code |
| file_ext | Source code |
| file_id | Source code |
| file_is_url | Source code |
| file_is_zip | Source code |
| file_label | Source code |
| file_name | Source code |
| file_parser | Source code |
| file_strip_zip | Source code |
| filter_def_formats | Source code |
| flip | Man page Source code |
| flip.gggenomes | Source code |
| flip.gggenomes_layout | Source code |
| flip_impl | Source code |
| flip_seqs | Man page Source code |
| flip_seqs.gggenomes | Source code |
| flip_seqs.gggenomes_layout | Source code |
| flip_strand | Man page Source code |
| flip_strand.character | Source code |
| flip_strand.logical | Source code |
| flip_strand.numeric | Source code |
| focus | Man page Source code |
| focus_feats | Source code |
| focus_links | Source code |
| gene_to_poly | Source code |
| genes | Man page Source code |
| geom_bin_label | Man page Source code |
| geom_coverage | Man page Source code |
| geom_feat | Man page Source code |
| geom_feat_label | Man page Source code |
| geom_feat_note | Man page Source code |
| geom_feat_tag | Man page Source code |
| geom_feat_text | Man page Source code |
| geom_gene | Man page Source code |
| geom_gene2 | Source code |
| geom_gene_label | Man page Source code |
| geom_gene_note | Man page Source code |
| geom_gene_tag | Man page Source code |
| geom_gene_text | Man page Source code |
| geom_link | Man page Source code |
| geom_link_label | Man page Source code |
| geom_link_line | Man page Source code |
| geom_seq | Man page Source code |
| geom_seq_break | Man page Source code |
| geom_seq_label | Man page Source code |
| geom_variant | Man page Source code |
| geom_wiggle | Man page Source code |
| get_seqlen | Source code |
| get_seqs | Man page Source code |
| get_seqs.gggenomes | Source code |
| get_seqs.gggenomes_layout | Source code |
| gggenomes | Man page Source code |
| ggplot.gggenomes_layout | Man page Source code |
| guess_is_gff2 | Source code |
| has_dots | Source code |
| has_vars | Man page Source code |
| if_reverse | Man page Source code |
| in_range | Man page Source code |
| in_range_impl | Source code |
| index_loci | Source code |
| infer_cds_parent | Source code |
| infer_seqs_from_feats | Source code |
| infer_seqs_from_links | Source code |
| introduce | Man page Source code |
| intron_polys | Source code |
| is_connection | Source code |
| is_marginal | Source code |
| is_reverse | Man page Source code |
| just_dir | Source code |
| label_bp | Man page Source code |
| layout | Man page Source code |
| layout.gggenomes | Source code |
| layout.gggenomes_layout | Source code |
| layout_feats | Source code |
| layout_genomes | Man page Source code |
| layout_links | Source code |
| layout_seqs | Man page Source code |
| link_to_poly | Source code |
| link_width | Source code |
| links | Man page Source code |
| locate | Man page Source code |
| locate_impl | Source code |
| makeContent.genetree | Source code |
| match_arg | Source code |
| max_width | Source code |
| name_unnamed_from_template | Source code |
| name_unnamed_from_values | Source code |
| native_height | Source code |
| native_width | Source code |
| parse_desc | Source code |
| pick | Man page Source code |
| pick_by_tree | Man page Source code |
| pick_impl | Source code |
| pick_seqs | Man page Source code |
| pick_seqs_within | Man page Source code |
| position_pile | Man page Source code |
| position_sixframe | Man page Source code |
| position_strand | Man page Source code |
| position_strandpile | Man page Source code |
| position_variant | Man page Source code |
| print.gggenomes_layout | Source code |
| project_feats | Source code |
| project_links | Source code |
| pull_bins | Man page Source code |
| pull_bins.gggenomes | Source code |
| pull_bins.gggenomes_layout | Man page Source code |
| pull_feats | Man page Source code |
| pull_feats.gggenomes | Source code |
| pull_feats.gggenomes_layout | Source code |
| pull_genes | Man page Source code |
| pull_genes.gggenomes | Source code |
| pull_genes.gggenomes_layout | Source code |
| pull_links | Man page Source code |
| pull_links.gggenomes | Source code |
| pull_links.gggenomes_layout | Source code |
| pull_seqs | Man page Source code |
| pull_seqs.gggenomes | Source code |
| pull_seqs.gggenomes_layout | Source code |
| pull_track | Man page Source code |
| pull_track.gggenomes | Source code |
| pull_track.gggenomes_layout | Source code |
| qc | Man page Source code |
| qw | Man page Source code |
| read_alitv | Man page Source code |
| read_alitv_genes | Source code |
| read_alitv_links | Source code |
| read_alitv_seqs | Source code |
| read_ambigious | Source code |
| read_bed | Man page Source code |
| read_blast | Man page Source code |
| read_context | Man page Source code |
| read_fai | Man page Source code |
| read_feats | Man page Source code |
| read_gbk | Man page Source code |
| read_gff3 | Man page Source code |
| read_links | Man page Source code |
| read_paf | Man page Source code |
| read_seq_len | Man page Source code |
| read_seqs | Man page Source code |
| read_subfeats | Man page Source code |
| read_sublinks | Man page Source code |
| read_tracks | Man page |
| read_vcf | Man page Source code |
| reexports | Man page |
| require_vars | Man page Source code |
| scale_color_variant | Man page Source code |
| scale_shape_variant | Man page Source code |
| scale_x_bp | Man page Source code |
| scale_x_continuous | Source code |
| seqs | Man page Source code |
| set_class | Man page Source code |
| set_seqs | Man page Source code |
| set_seqs.gggenomes | Source code |
| set_seqs.gggenomes_layout | Source code |
| shared_names | Source code |
| shift | Man page Source code |
| size_expand | Source code |
| span2arrow | Source code |
| span2rect | Source code |
| split_by | Man page Source code |
| stack_pos | Source code |
| strand_chr | Man page Source code |
| strand_chr.character | Source code |
| strand_chr.factor | Source code |
| strand_chr.logical | Source code |
| strand_chr.numeric | Source code |
| strand_int | Man page Source code |
| strand_int.character | Source code |
| strand_int.factor | Source code |
| strand_int.logical | Source code |
| strand_int.numeric | Source code |
| strand_lgl | Man page Source code |
| strand_lgl.character | Source code |
| strand_lgl.logical | Source code |
| strand_lgl.numeric | Source code |
| strip_class | Man page Source code |
| swap_if | Man page Source code |
| swap_query | Man page Source code |
| sync | Man page Source code |
| sync.gggenomes | Source code |
| sync.gggenomes_layout | Source code |
| synteny_to_link | Source code |
| theme_gggenomes_clean | Man page Source code |
| tidy_attributes | Source code |
| tidy_paf_tags | Source code |
| tidy_tax | Source code |
| track | Man page Source code |
| track_ids | Man page Source code |
| track_ids.gggenomes | Source code |
| track_ids.gggenomes_layout | Source code |
| track_info | Man page Source code |
| track_info.gggenomes | Source code |
| track_info.gggenomes_layout | Source code |
| track_nrows | Source code |
| track_type | Source code |
| track_types | Source code |
| tracks | Source code |
| tracks.gggenomes | Source code |
| tracks.gggenomes_layout | Source code |
| trim_feats_to_subseqs | Source code |
| trim_links_to_subseqs | Source code |
| unchop_cds | Source code |
| unnest_exons | Man page Source code |
| vars_track | Man page Source code |
| vars_track_error | Source code |
| vec_unzip | Source code |
| width | Man page Source code |
| width0 | Man page Source code |
| wrap | Source code |
| wrap_impl | Source code |
| write_gff3 | Man page Source code |
| x | Source code |
| xend | Source code |
