User guide¶
You want to “quality control” your Ribo-seq samples for downstrean analyses, or run the Ribo-seq ORF discovery pipeline? First, you need to prepare genome indices and annotations for your organism. This has to be done once for any given reference genome and annotation. Consult How to prepare annotations.
The pipeline itself consists of two “modules”: the ORF profile construction, where periodic read lengths and ribosome P-site offsets are inferred from the data; and the translation prediction, where translation events are predicted. Consult How to run the pipeline.