updating so gff3 to bed conversion is used regardless of -a option; f…

bergmanlab / ngs_te_mapper2

Software for detecting transposable element insertions from next-generation sequencing data

BSD 2-Clause "Simplified" License

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Closed pbasting closed 3 years ago

pbasting commented 3 years ago

I updated the repeatmask and parse_rm_out functions so that these return a gff3 compatible with gff3tobed. I then made it so gff3tobed was called regardless if -a was provided or not.
I also fixed a minor coordinate issue with the gff3tobed conversion.