Halotype-based variant caller for sequencing data including next-generation sequencing (NGS).
This app combines powerful cloud computing with the Platypus tool for variant detection/discovery. It analyzes a BAM file and generates a VCF file that contains a list of identified variants including genotype calls and likelihoods.
Use this app to detect the following types of variants in BAM files from whole genome sequencing (WGS) and exome sequencing:
- multinucleotide variants (also known as MNPs)
- deletions and insertions (DIPs) that are less than one read length
This app is only compatible with BAM files obtained from genome sequencing. When this app is started, only BAM files (filenames that end with .bam) will be able to be selected.