Add GFF annotation option and change fasta and gtf input flags names#90
Merged
ploy-np merged 8 commits intoGoekeLab:masterfrom Oct 8, 2021
Merged
Add GFF annotation option and change fasta and gtf input flags names#90ploy-np merged 8 commits intoGoekeLab:masterfrom
ploy-np merged 8 commits intoGoekeLab:masterfrom
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- tested on the demo dataset and a full dataset, and the mod_assignments did not change in all positions
- the gff annotation option was tested on the demo dataset and generated the same results as the gtf annotation option - only GENCODE and ENSEMBL fasta-gff pairs are supported as the UCSC fasta does not contain the gene id information at the ">" line - UCSC can use fasta-gtf pair instead
ploy-np
approved these changes
Oct 8, 2021
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The GFF annotation option generates the same dataprep results as the GTF annotation option (tested on the demo dataset):
