# Optimization of ribosome P-site positioning in ribosome profiling data

## Documentation for package ‘riboWaltz’ version 1.2.0

- DESCRIPTION file.

## Help Pages

bamtobed | From BAM files to BED files.
bamtolist | From BAM files to lists of data tables or GRangesList objects.
bedtolist | From BED files to lists of data tables or GRangesList objects.
cds_coverage | Number of in-frame P-sites per coding sequence.
codon_coverage | Number of reads per codon.
codon_usage_psite | Empirical codon usage indexes.
create_annotation | Annotation data table.
duplicates_filter | Duplicates filtering.
frame_psite | Percentage of P-sites per reading frame.
frame_psite_length | Percentage of P-sites per reading frame stratified by read length.
length_filter | Read length filtering.
metaheatmap_psite | Ribosome occupancy metaheatmaps at single-nucleotide resolution.
metaprofile_psite | Ribosome occupancy metaprofiles at single-nucleotide resolution.
mm81cdna | Annotation data table
psite | Ribosome P-sites position within reads.
psite_info | Update reads information according to the inferred P-sites.
psite_offset | P-site offsets data table
reads_list | Reads information data table
region_psite | Percentage of P-sites per transcript region.
rends_heat | Metaheatmaps of the two extremities of the reads.
rlength_distr | Read length distributions.