sjteresi
commented
2 years ago - Add better log and error messages to the pipeline for the (likely common) error when users provide annotation files that do not have corresponding chromosomes. I.e a gene annotation with 7 chromosomes and a TE annotation with 8 chromosomes. OR the situation where they have the same total number of chromosomes but the IDs are different.
- Refactor preprocess() to have less input args under the hood.
- Also add a better (but half-finished) mock data structure for TransposonData and GeneData