diff --git a/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java b/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java index 45499817e..3fd3857c5 100755 --- a/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java +++ b/public/java/src/org/broadinstitute/sting/gatk/arguments/GATKArgumentCollection.java @@ -211,6 +211,7 @@ public class GATKArgumentCollection { * Any value greater than zero will be used to recalculate the quantization using that many levels. * Negative values mean that we should quantize using the recalibration report's quantization level. */ + @Hidden @Argument(fullName="quantize_quals", shortName = "qq", doc = "Quantize quality scores to a given number of levels (with -BQSR)", required=false) public int quantizationLevels = 0;