Ribotools, an add-on to Rp-Bp, is a toolbox for the analysis of matched ribosome profiling (Ribo-seq) and RNA sequencing (RNA-seq) data.
Ribotools can be used to generate count tables, starting from raw, trimmed reads, or existing alignments, taking into consideration Ribo-seq periodicity estimates and RNA-seq fragment length. Ribotools can perform translation efficiency (TE) or differential expression (DE) analysis, using standard features such as genes (exon or CDS), or Ribo-seq ORFs, accommodating for sample-to-sample variance, complex experimental designs, or confounding factors. For TE analysis, features are automatically classified into different regulatory layers.
Consult the user guide for instructions on how to install the package and detailed usage instructions.
For bugs, issues, or feature requests, use the bug tracker. Follow the instructions and guidelines given in the templates.
The MIT License (MIT). Copyright (c) 2019 Etienne Boileau.