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  • clarissaboschi
    Member
    • Apr 2010
    • 63
    #1

    Remove duplicate genes/mRNA from a gff file

    I would like to combine two different gff files and then remove some duplicate genes/mRNA/exons with overlaps. I did not find any tool to do it. There is an option using bedtools to merge two gff files, but not to remove these duplications. Also, I can do it using blast, but there are too many steps, I am looking for something relatively simple.
    These overlaps are the ones with different IDs, but same or similar coordinates (with some % of overlap).
    Any suggestions?
    Tags: annotation file, duplicates, gff, gff3
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