R reference

Every function and dataset of the R package.

Functions

gbk_features_to_df	Convert GenBank Features to Data Frame
GC_align	Align gene clusters
GC_annotation	Add Annotations to a GC_chart
GC_chart	Create a GC Chart Visualization
GC_cluster	Modify Cluster Settings
GC_clusterFooter	Add a Footer to Each Cluster in a GC Chart
GC_clusterLabel	Set or Update Cluster Labels for a GC Chart
GC_clusterTitle	Update cluster Title of a GC Chart Cluster
GC_color	Update Color Scheme in Gene Chart
GC_coordinates	Modify Coordinates in a GC Chart
GC_element_style	Style an Individual Element
GC_events	Report Chart Interactions and Completed Updates
GC_genes	Modify Gene Characteristics within a Chart
GC_grid	Update Grid Display of a GC Chart Cluster
GC_labels	Add Labels to Each Cluster in a GC Chart
GC_legend	Set Legend for a Gene Chart
GC_links	Add Links to GC Chart
GC_normalize	Normalize Gene Clusters in a Genomic Chart
GC_pattern	Fill Genes with Patterns
GC_scale	Update Scale of a GC Chart Cluster
GC_scaleBar	Update Scale Bar of a GC Chart Cluster
GC_sequence	Update Sequence Display of a GC Chart Cluster
GC_theme	Set the Theme of a GC Chart
GC_title	Add Title to a GC_chart
GC_toolbar	Set the Toolbar of a GC Chart
GC_tooltip	Set Tooltip for a Gene Chart
GC_trackMouse	Track Mouse Movement in a GC_chart
GC_transcript	Modify Transcript Characteristics within a Chart
GC_zoom_to	Set the Zoom of a GC Chart in Shiny
GC_zoom	Add a Zoom Slider to a GC Chart
genbank_to_fasta	Convert GenBank to FASTA Format
geneviewer_palette	Colours of a geneviewer Palette
geneviewer_theme	Settings of a Built-in Theme
geneviewer-shiny	Shiny bindings for geneviewer
get_introns	Calculate Intron Positions Based on Exons
mummer_alignment	Perform Sequence Alignment Using MUMmer
protein_blast	Find Homologous Proteins Between Clusters by Pairwise Alignment
read_bed	Read BED Files
read_fasta	Read Protein Sequences from FASTA Files
read_gbk	Read Data from GenBank Files
read_gff	Read GFF Files
reexports	Objects exported from other packages

Datasets

BRCA1_splice_variants	BRCA1 Splice Variants
coronavirus_genomes	Genes of eleven coronaviruses from the four genera
erythromycin_BlastP	Erythromycin protein alignment results
erythromycin_cluster	Erythromycin Gene Cluster Data
hs_dystrophin_transcripts	Human Dystrophin Transcripts Data
human_hox_genes	Human HOX Gene Cluster Data
mitochondrial_gene_order	Human and Locust Mitochondrial Gene Order
ophA_clusters	ophA Gene Cluster from Omphalotus olearius
pQEB1_alignment	Nucleotide alignment of the pQEB1 plasmids
pQEB1_plasmids	Genes of the blaKPC-2 plasmid pQEB1 and four of its variants
tn7_crispr_elements	Genes of Tn7 and of Tn7-like transposons carrying a CRISPR-Cas system