Changes between Version 27 and Version 28 of SnpCallingPipeline

Timestamp:

Oct 16, 2010 6:17:53 PM (14 years ago)

Author:

Morris Swertz

Comment:

--

SnpCallingPipeline

@@ -36 +36 @@
                 "chr[1-24].fasta" -> align2
                 "chr[1-24].fasta" -> alignPE
-                "flowcell_lane.2.fq.gz" -> align2 -> alignPE -> MarkDuplicates -> "IndelRealigner (knownsOnly) & FixMateInformation" -> "flowcell_lane.aligned.bam"
-                "realign.intervals" -> "IndelRealigner (knownsOnly) & FixMateInformation"   
+                "flowcell_lane.2.fq.gz" -> align2 -> alignPE -> MarkDuplicates -> "IndelRealigner (knownsOnly)"-> FixMateInformation" -> "flowcell_lane.aligned.bam"
+                "realign.intervals" -> "IndelRealigner (knownsOnly)"   
                 label = "Per Lane*Chromosome (750*3*24=54k) ";
         }
@@ -45 +45 @@
                 color=lightgrey;
                 node [style=filled,color=white];
-                "flowcell_lane.aligned.bam" -> Merge -> "sample.aligned.bam" -> "IndelRealigner & FixMateInformation"
+                "flowcell_lane.aligned.bam" -> Merge -> "sample.aligned.bam" -> "IndelRealigner"-> "FixMateInformation"
                 "flowcell_lane2.aligned.bam" -> Merge
                 "flowcell_lane3.aligned.bam" -> Merge
-                "IndelRealigner & FixMateInformation" -> IndelGenotyperV2 -> FilterSingleCalls -> UnifiedGenotyper -> Filtration -> VariantEval -> "QC reports"
+                "FixMateInformation" -> IndelGenotyperV2 -> FilterSingleCalls -> UnifiedGenotyper -> Filtration -> VariantEval -> "QC reports"
 Filtration -> VCF
                 label = "Per Sample*Chromosome (750*24=18k)";