calc_cutoffs_from_profiles	calc_cutoffs_from_profiles
choose_readlengths	choose_readlengths
create_html_report	create_html_report
create_pdfs_from_rds_objects	create_pdfs_from_rds_objects
FaFile_Circ	FaFile_Circ-class
FaFile_Circ-class	FaFile_Circ-class
getSeq,FaFile_Circ-method	getSeq-FaFile_Circ-method
get_codon_usage_data	get_codon_usage_data
get_default_rl_selection	get_default_rl_selection
get_metagene_data	get_metagene_data
get_ps_fromsplicemin	get_ps_fromsplicemin
get_ps_fromspliceplus	get_ps_fromspliceplus
get_rl_and_cutoffs	get_rl_and_cutoffs
get_top50_all_genes	get_top50_all_genes
get_top50_cds_genes	get_top50_cds_genes
get_top50_mapping	get_top50_mapping
load_annotation	load_annotation
plot_codon_usage_bulk	plot_codon_usage_bulk
plot_codon_usage_bulk_rmd	plot_codon_usage_bulk_rmd
plot_codon_usage_positional	plot_codon_usage_positional
plot_codon_usage_positional_rmd	plot_codon_usage_positional_rmd
plot_frame_dist_boxplot	plot_frame_dist_boxplot
plot_frame_dist_boxplot_rmd	plot_frame_dist_boxplot_rmd
plot_metagene_bar	plot_metagene_bar
plot_metagene_bar_rmd	plot_metagene_bar_rmd
plot_metagene_hm	plot_metagene_hm
plot_metagene_hm_rmd	plot_metagene_hm_rmd
plot_read_biotype_dist_1	plot_read_biotype_dist_1
plot_read_biotype_dist_2	plot_read_biotype_dist_2
plot_read_biotype_dist_by_length	plot_read_biotype_dist_by_length
plot_read_length_dist	plot_read_length_dist
plot_read_length_dist_by_biotype	plot_read_length_dist_by_biotype
prepare_annotation_files	prepare_annotation_files
RiboseQC_analysis	RiboseQC_analysis
seqinfo,FaFile_Circ-method	seqinfo-FaFile_Circ-method
