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Description

ＶｏｌｔＭＲ　is pure java NGS (DNA/RNA) mapping and realignment soft that run on Hadoop 2.0 The accuracy is comparable to BWA-MEM and novoalgin with speed faster than those aligner. Using 100 core, VoltMR finish typical exome sample (10GB),mapping, sort, mark duplicate, local realignment in 30 minitue. It use about 10GB to 15GB RAM for each hadoop mapper and reducer.
Currently, VoltMR take fastq as a input and output bam/ADAM format.
For DNA mapping, GATK compatible realignment/recalbration followed after mapping.
For RNA mapping, splice aware algorithm is implemented. Volt is open source, released as "LGPLv3"

Features

DNA mapping with Realignment/recalibration
Splice Aware RNA mapping
BAM/Hadoop-BAM/ADAM output
DbSNP and ALT region aware reference construction
Mapping for Virus Integration

readme
[Voltmanual]

The wiki uses Markdown syntax.

Project Members:

• Hiroki Ueda (admin)