API for thackl/gggenomes
A Grammar of Graphics for Comparative Genomics

Global functions
%<>% Man page
%>% Man page
PositionPile Man page
PositionSixframe Man page
PositionStrand Man page
PositionStrandpile Man page
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 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 Man page Source code
as_bounds Source code
as_bounds.numeric 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 Source code
as_subfeats Man page Source code
as_subfeats.default Source code
as_subfeats.tbl_df Source code
as_sublinks Man page Source code
as_sublinks.default Source code
as_sublinks.tbl_df Source code
as_tibble.GRanges Source code
as_tracks Man page Source code
bins Man page Source code
check_strand 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 Source code
combine_two_strands Source code
comma Man page 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 Source code
drop_layout Source code
drop_link_layout Source code
drop_seq_layout 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_prot_uniref50 Man page
emale_seqs Man page
emale_tirs Man page
ex Man page Source code
exon_polys Source code
exon_spans Source code
feats Man page Source code
feats0 Source code
file_ext Source code
file_id Source code
file_is_url Source code
file_is_zip Source code
file_label Man page 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_by_links Man page Source code
flip_by_links.gggenomes Source code
flip_by_links.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 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_feat Man page Source code
geom_feat_label 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_seq Man page Source code
geom_seq_label 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 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 Source code
just_dir Source code
label_bp Man page
layout Man page Source code
layout.gggenomes Source code
layout.gggenomes_layout Source code
layout_feats Man page Source code
layout_genomes Man page Source code
layout_links Man page Source code
layout_seqs Man page Source code
link_to_poly Source code
links Man page Source code
locate Man page Source code
locate_impl Source code
makeContent.genetree Source code
match_arg Man page
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
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
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
read_blast Man page
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
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
reexports Man page
require_vars Man page Source code
scale_x_bp Man page Source code
scale_x_continuous Source code
seqs 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
stack_pos Source code
strand_chr Source code
strand_chr.character Source code
strand_chr.factor Source code
strand_chr.logical Source code
strand_chr.numeric Source code
strand_int Source code
strand_int.character Source code
strand_int.factor Source code
strand_int.logical Source code
strand_int.numeric Source code
strand_lgl Source code
strand_lgl.character Source code
strand_lgl.logical Source code
strand_lgl.numeric Source code
swap_if Man page Source code
swap_query Man page Source code
synteny_to_link Source code
theme_gggenomes_clean Man page Source code
tidy_attributes Source code
tidy_paf_tags 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 Man page Source code
track_type Man page Source code
track_types Man page 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 Source code
vars_track Man page Source code
vars_track_error Man page 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 Man page Source code
xend Source code
thackl/gggenomes documentation built on Nov. 8, 2021, 8:50 a.m.