Multi-Sequence Alignment Chord Diagram Visualization Tool

Documentation for package ‘ggchord’ version 0.8.0

Help Pages

+.ggchord	Combine a ggchord plot with ggplot2 objects
as.data.frame.ggchord_validation	Coerce a validation result to a flat data.frame
clean_ggchord_data	Clean ggchord input data with explicit, report-driven policies
coord_chord	Chord diagram coordinate system
deduplicate_ggchord_ribbons	Deduplicate alignment ribbons
filter_ggchord_ribbons	Filter alignment ribbons before plotting
gene_data_example	Example gene annotation data
geom_axis	Add an axis layer
geom_feature	Draw generic genomic features
geom_gene	Add a gene arrow layer
geom_gene_label	Add a gene label layer
geom_gene_label_repel	Add a repelled gene label layer (ggrepel-style)
geom_ribbon	Add an alignment ribbon layer
geom_ribbon_highlight	Highlight selected alignment ribbons
geom_seq	Add a sequence arc layer
geom_seq_label	Add a sequence label layer
geom_seq_region	Highlight regions along sequence arcs
get_chord_layout	Get the chord layout from the package environment
ggchord	ggchord: layered multi-sequence alignment chord diagrams for ggplot2
ggplotly.ggchord	Convert a ggchord plot to a plotly object
merge_ggchord_ribbons	Merge adjacent or overlapping alignment blocks of the same sequence pair
print.ggchord_clean	Print a cleaned ggchord data result
read_blast	Read one or more BLAST tabular output files into ribbon_data format
read_fasta_lengths	Read one or more FASTA files into seq_data format
read_gff3	Read one or more GFF3 files into gene_data format
ribbon_data_example	Example alignment data
seq_data_example	Example sequence data
validate_ggchord_data	Validate ggchord input data before plotting