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  • NanYu
    Member
    • Apr 2011
    • 21
    #1

    comparing two samples using "bcftools -T" option?

    Hi,
    I have two samples mapped to reference genome and would like to detect difference between two samples (not SNPs vs. the reference sequences).

    I'm trying to use the "bcftools -bvcgT pair sample1.bvf sample2.bvf -> s1_vs_s2.bcf" option to do it. Is the "-T pair" the right option to use?

    Also, the version I have does not have this option. Does it mean that I need a newer version or this option is not valid anymore?

    If -T is not the right one, is there a way to do so using samtools? Or I will have to write some scripts by myself?

    Thanks!
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