diff --git a/docs/pipelines/shiva.md b/docs/pipelines/shiva.md
index 9f3b0076fb056289f89bd7b59e2fa757680234c1..a92ed4ab3f90d4b2429e44aa99ee5f23b3d291fb 100644
--- a/docs/pipelines/shiva.md
+++ b/docs/pipelines/shiva.md
@@ -113,6 +113,8 @@ To view all possible config options please navigate to our Gitlab wiki page
 | shiva | use_analyze_covariates | Boolean | false | Analyze covariates during base recalibration step |
 | shiva | bam_to_fastq | Boolean | false | Convert bam files to fastq files |
 | shiva | correct_readgroups | Boolean | false | Attempt to correct read groups |
+| shiva | amplicon_bed | Path | Path to target bed file |
+| shiva | regions_of_interest | Array of paths | Array of paths to region of interest (e.g. gene panels) bed files |
 | vcffilter | min_sample_depth | Integer | 8 | Filter variants with at least x coverage |
 | vcffilter | min_alternate_depth | Integer | 2 | Filter variants with at least x depth on the alternate allele |
 | vcffilter | min_samples_pass | Integer | 1 | Minimum amount of samples which pass custom filter (requires additional flags) |
diff --git a/public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala b/public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
index d12c307cb8b2e5c8213d3e444832880a230fe9f9..55095b4199db67a97e6bd344e24bd68bc087d11a 100644
--- a/public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
+++ b/public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
@@ -195,7 +195,7 @@ object BammetricsReport extends ReportBuilder {
       }
     }
 
-    var map: Map[Int, Map[String, Int]] = Map()
+    var map: Map[Int, Map[String, Long]] = Map()
 
     def fill(sample: String, lib: Option[String]): Unit = {
 
@@ -208,7 +208,7 @@ object BammetricsReport extends ReportBuilder {
         case (l: List[_], l2: List[_]) => {
           l.zip(l2).foreach(i => {
             val insertSize = i._1.toString.toInt
-            val count = i._2.toString.toInt
+            val count = i._2.toString.toLong
             val old = map.getOrElse(insertSize, Map())
             if (libraryLevel) map += insertSize -> (old + ((s"$sample-" + lib.get) -> count))
             else map += insertSize -> (old + (sample -> count))