Fix for processing from bam files
Fix for processing from bam files

clark-lab/ngsane,clark-lab/ngsane,clark-lab/ngsane,BauerLab/ngsane,BauerLab/ngsane,aehrc/ngsane,aehrc/ngsane,aehrc/ngsane,BauerLab/ngsane,BauerLab/ngsane,clark-lab/ngsane,aehrc/ngsane