Changes between Version 20 and Version 21 of SnpCallingPipeline


Ignore:
Timestamp:
Oct 16, 2010 5:59:25 PM (12 years ago)
Author:
Morris Swertz
Comment:

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  • SnpCallingPipeline

    v20 v21  
    3232                color=lightgrey;
    3333                node [style=filled,color=white];
    34                 "Reads.1fq.gz" -> align1 -> alignPE
     34                "flowcell_lane.1fq.gz" -> align1 -> alignPE
    3535                "chr[1-24].fasta" -> align1
    3636                "chr[1-24].fasta" -> align2
    3737                "chr[1-24].fasta" -> alignPE
    38                 "Reads.2.fq.gz" -> align2 -> alignPE -> MarkDuplicates -> RealignIndelsAndFixMates -> "Lane.aligned.bam"
     38                "flowcell_lane.2.fq.gz" -> align2 -> alignPE -> MarkDuplicates -> RealignIndelsAndFixMates -> "flowcell_lane.aligned.bam"
    3939                "realign.intervals" -> RealignIndelsAndFixMates   
    4040                label = "Per lane/Per chromosome";
     
    4545                color=lightgrey;
    4646                node [style=filled,color=white];
    47                 "Lane1.aligned.bam" -> RealignIndelsAndFixMates2
    48                 "Lane2.aligned.bam" -> RealignIndelsAndFixMates2
    49                 "Lane3.aligned.bam" -> RealignIndelsAndFixMates2
     47                "flowcell_lane.aligned.bam" -> RealignIndelsAndFixMates2
     48                "flowcell_lane2.aligned.bam" -> RealignIndelsAndFixMates2
     49                "flowcell_lane3.aligned.bam" -> RealignIndelsAndFixMates2
    5050                RealignIndelsAndFixMates2 -> IndelGenotyperV2 -> FilterSingleCalls -> UnifiedGenotyper -> Filtration -> VariantEval -> "QC reports"
    5151Filtration -> VCF