psite_info_rW: psite_info_rW

In goodarzilab/Ribolog: Logistic-regression-based analysis of ribosome profiling data

psite_info_rW

Description

Function to add p-site offset information to a reads_list object

Usage

psite_info_rW(reads_list, offset, site = NULL, fastapath = NULL,
  fasta_genome = TRUE, refseq_sep = NULL, bsgenome = NULL,
  gtfpath = NULL, txdb = NULL, dataSource = NA, organism = NA,
  granges = FALSE)

Arguments

reads_list	A reads_list object produced by bamtolist_rW
offset	Offset data table produced by psite_rW
...	...

Details

This functions adds to each read four pieces of information regarding its p-site: distance from start of the transcript, distance from start and end of the coding sequence (CDS), and region (5' UTR, CDS or 3' UTR).

Examples

reads_psite_list_LMCN <- psite_info_rW(reads_list_LMCN, psite_offset_LMCN)

goodarzilab/Ribolog documentation built on Oct. 7, 2022, 10:14 p.m.