Platform for Drug Discovery



BWA(PE)-CNVNator: Discover Copy Number Variations


Introduction


    Map short reads to reference genome by using BWA, and call CNV with CNVnator_v0.2.2. This pipeline is only for hg19 [input:bam(sorted and indexed) output:CNVNator output formatfile,OPTION:bin size] notice:CNVNator considers N sequence located on start and end of chromosomes as a deletion.


    Input formatFASTQ (paired-end)
    Library layoutPaired-end
    SpeciesHuman(hg19)
    Execution timeAbout 3 hours. (27MB with 500K reads [45bp])

    Results
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    CNV results (Original format)
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    CNV results (GTF format)

    Pipeline history
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