Changed default minimum mapq to 20 to reduce default FDR

Tweaked assembly parameter to slightly improve assembly runtime

src/main/resources/gridss.properties

@@ -1,5 +1,5 @@
-maxCoverage = 10000
-minMapq = 10
+maxCoverage = 25000
+minMapq = 20
 fallbackMapq = 20
 #maxMapq = 70
 minAnchorShannonEntropy = 0.5
@@ -47,12 +47,12 @@ assembly.errorCorrection.maxBaseMismatchForCollapse = 2
 assembly.errorCorrection.maxPathCollapseLengthMultiple = 2.0
 assembly.realignContigs = true
 assembly.downsample.acceptDensityPortion = 0.5
-assembly.downsample.targetEvidenceDensity = 5.0 
+assembly.downsample.targetEvidenceDensity = 6.0 
 assembly.downsample.minimumDensityWindowSize = 1000  
 assembly.positional.maxPathLengthMultiple = 1.1
 assembly.positional.retainWidthMultiple = 5.0
 assembly.positional.flushWidthMultiple = 10.0
-assembly.positional.maximumNodeDensity = 5.0
+assembly.positional.maximumNodeDensity = 2.0
 assembly.positional.trimSelfIntersectingReads = true
 assembly.positional.forceFullMemoizationRecalculationAt = 0.8