jorvis / biocode

Bioinformatics code libraries and scripts

MIT License

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Added parsing for predicted introns and anticodon #48

Closed JWDebler closed 6 years ago

JWDebler commented 7 years ago

tRNAScan-SE's output file lists the location of possible introns detected within the tRNA coding sequence as well as the anticodon. I have added parsing for the intron location and anticodon and added predicted introns as a split exon in the gff output. The anticodon is added as a qualifier within the tRNA annotation. I also modified the naming of the individual features to get it closer to https://www.ncbi.nlm.nih.gov/genbank/eukaryotic_genome_submission_annotation/#rRNA

hacktoberfest :-)

jorvis commented 7 years ago

Thanks for your work here. I'll be happy to merge it, but want to first be sure it survives a parse via biocode.gff.get_gff3_features() and then is written back out by biocode.gff.print_biogene(). If you want to verify this I can merge, else I will in a few days and then can process the merge.

JWDebler commented 7 years ago

I have only used this script as a standalone, so you might be better suited to test this. Cheers