ry.tRNA: Custom R2easyR script that writes R2R inputs based on Ryota's...

In JPSieg/R2easyR: Facilitates Mapping Experimental RNA Reactivity Data to Secondary Structures Drawn with R2R

Custom R2easyR script that writes R2R inputs based on Ryota's tRNA structure seq data

Description

This function reads a .ct file, reformats it to include dot-bracket secondary structure info, adds shape reactivities from a .shape file, maps them to a R2easyR color pallet, and and prints .sto and a R2R meta files, and rewrites the .sto files to include label line and place explicit information to get tRNA that are drawn with the traditional layout. Run R2R on the master.r2r_meta file to generate all tRNA at once.

Usage

ry.tRNA(
  ct_file = "CT files",
  shape_file = "shape files",
  output_file = "R2R_files"
)

Arguments

ct_file	Path to the directory containing .ct files
shape_file	Path to the directory containing .shape files
output_file	Path to the directory you want the R2R .sto and metafiles to print in

JPSieg/R2easyR documentation built on March 2, 2024, 8:42 a.m.