Man page - pmrna(1)

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Package: aegean
apt-get install aegean

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pmrna - filter out all but the primary isoform from each gene of the input

pmrna [ options ] < annot.gff3 > new.gff3

Options:
-h |--help

print this help message and exit

-i |--introns

flag indicating that introns are declared explicitly and do not need to be inferred from exon features; default is to infer introns

-l |--locus

report a single representative mRNA for each locus instead of each gene

-m |--map: FILE

write each gene/mRNA mapping to the specified file

-p |--pseudogenes

disable pseudogene detection and correction