Resolve "Bam Stats and Filter"

Closes #4 (closed)

Adds in BAM filter, Dedup and QC.

workflow/conf/biohpc.config

@@ -15,6 +15,10 @@ process {
     module = ['python/3.6.1-2-anaconda', 'bwa/intel/0.7.12', 'samtools/intel/1.3']
     cpus = 32
   }
+  $filterReads{
+    module = ['python/3.6.1-2-anaconda', 'samtools/1.4.1', 'sambamba/0.6.6', 'bedtools/2.26.0']
+    cpus = 32
+  }
 }
 
 params {