diff --git a/src/main/java/picard/analysis/directed/PanelMetricsBase.java b/src/main/java/picard/analysis/directed/PanelMetricsBase.java index 8a12f0800e..5f39c61e91 100644 --- a/src/main/java/picard/analysis/directed/PanelMetricsBase.java +++ b/src/main/java/picard/analysis/directed/PanelMetricsBase.java @@ -61,7 +61,7 @@ public class PanelMetricsBase extends MultilevelMetrics { /** The number of PF aligned bases that mapped to a targeted region of the genome. */ public long ON_TARGET_BASES; - //metrics below here are derived after collection + // Metrics below here are derived after collection /** The fraction of reads passing filter, PF_READS/TOTAL_READS. */ public double PCT_PF_READS; @@ -151,7 +151,7 @@ public class PanelMetricsBase extends MultilevelMetrics { /** * A measure of how undercovered <= 50% GC regions are relative to the mean. For each GC bin [0..50] * we calculate a = % of target territory, and b = % of aligned reads aligned to these targets. - * AT DROPOUT is then abs(sum(a-b when a-b < 0)). E.g. if the value is 5% this implies that 5% of total + * AT_DROPOUT is then sum(a-b if a-b > 0 else 0). E.g. if the value is 5%, this implies that 5% of total * reads that should have mapped to GC<=50% regions mapped elsewhere. */ public double AT_DROPOUT; @@ -159,7 +159,7 @@ public class PanelMetricsBase extends MultilevelMetrics { /** * A measure of how undercovered >= 50% GC regions are relative to the mean. For each GC bin [50..100] * we calculate a = % of target territory, and b = % of aligned reads aligned to these targets. - * GC DROPOUT is then abs(sum(a-b when a-b < 0)). E.g. if the value is 5% this implies that 5% of total + * GC_DROPOUT is then sum(a-b if a-b > 0 else 0). E.g. if the value is 5% this implies that 5% of total * reads that should have mapped to GC>=50% regions mapped elsewhere. */ public double GC_DROPOUT;