This repository is a stub for a soon to be built Snakemake workflow for running TOGA, which performs exon-aware liftover of genome annotations from a high-quality reference annotation to a new genome assembly (predicated on the feasibility of whole genome alignment between the two genomes). The utilities directory currently contains a handful of python scripts for various steps of the TOGA workflow.
harvardinformatics/AnnotationTOGA
Guidelines for running TOGA and scripts for processing outputs
Python