An R Interface for Ribo Files


[Up] [Top]

Documentation for package ‘ribor’ version 1.10.0

Help Pages

alias_hash Ribo Class
alias_hash-method Ribo Class
experiments Ribo Class
experiments-method Ribo Class
experiment_info Ribo Class
experiment_info-method Ribo Class
format_version Ribo Class
format_version-method Ribo Class
get_coverage Retrieves the coverage data for a given transcript
get_experiments Provides a list of experiments from a .ribo file
get_info Get information about the .ribo file
get_internal_region_coordinates Retrieves the region stop and start coordinates
get_internal_region_lengths Returns the overall length of each region with UTR Junctions
get_length_distribution Retrieves the length distribution of a given region
get_metadata Retrieves the metadata of an experiment
get_metagene Retrieves the metagene data from a .ribo file
get_original_region_coordinates Retrieves the region stop and start coordinates
get_original_region_lengths Returns the overall length of each region
get_reference_names Retrieves a list of reference names
get_region_coordinates Retrieves the region stop and start coordinates
get_region_counts Retrieves the region counts from a .ribo file
get_region_lengths Returns the overall length of each region with UTR Junctions
get_rnaseq Information on the RNA-Seq data of the experiments, if any
get_tidy_metagene Retrieves the metagene data in a tidy format
has_metadata Ribo Class
has_metadata-method Ribo Class
left_span Ribo Class
left_span-method Ribo Class
length_max Ribo Class
length_max-method Ribo Class
length_min Ribo Class
length_min-method Ribo Class
length_offset Ribo Class
length_offset-method Ribo Class
metagene_radius Ribo Class
metagene_radius-method Ribo Class
original_hash Ribo Class
original_hash-method Ribo Class
path Ribo Class
path-method Ribo Class
plot_length_distribution Plots the length distribution
plot_metagene Plots the metagene coverage data
plot_region_counts Plots the region counts of UTR5, CDS, and UTR3
reference Ribo Class
reference-method Ribo Class
rename_default Rename function for appris transcriptome naming convention
rename_transcripts Renames the transcripts
Ribo Ribo Class
Ribo-class Ribo Class
ribor ribor: A package for reading .ribo files
right_span Ribo Class
right_span-method Ribo Class
set_aliases Set the aliases of a ribo object
show-method Ribo Class
transcript_info Ribo Class
transcript_info-method Ribo Class