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  • JennyHu
    Junior Member
    • Nov 2015
    • 5

    #1

    Genome hg19**not found in homer config

    I want to use the Homer to do annotation.
    After I input "annotatePeaks.pl 31512_TH0_D0.bed hg19 > 31512_TH0_D0.ann.txt" , it shows
    "!!!!Genome hg19 not found in /home/jenny/NGStools/homer/.//config.txt"

    I used the command "perl /home/jenny/NGStools/homer/configureHomer.pl -install hg19" to install it, and I am sure I installed the hg19 for the homer

    Then input "perl /home/jenny/NGStools/homer/configureHomer.pl -list " to
    ​In fact, I don't know how the read the config.txt of the Homer

    Can you told me why I "Genome hg19 not found " in my Homer, please?

    Best,
    Jenny
  • JennyHu
    Junior Member
    • Nov 2015
    • 5

    #2
    "annotatePeaks.pl /home/jenny/ATAC_Seq_FQ/macs_FQ/data/31512_TH0_D0.bed hg19 > 31512_TH0_D0.ann.txt" is wrong!

    Delete the space before ">" is OK!

    "annotatePeaks.pl /home/jenny/ATAC_Seq_FQ/macs_FQ/data/31512_TH0_D0.bed hg19 > 31512_TH0_D0.ann.txt"


    ​

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