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  • micron
    Junior Member
    • Sep 2014
    • 1

    #1

    Homer makeTagDirectory error with hg19

    I have installed hg19 for homer but when I try to make a tag directory:

    makeTagDirectory my_tagDirectory -checkGC -genome hg19 -format bed myfile.bed

    I get the following error messages:
    Couldn't open a sequence file for "1" (home/user/glob/homer//data/genomes/hg19//genome.fa.masked)

    ...and so on for every chromosome.

    I tried giving homer the genome in a separate fasta file, and then it works.

    Any tips on what might be the problem?

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