BigBWA

BigBWA accelerates scalable, fault-tolerant sequence alignment by running the Burrows-Wheeler Aligner (BWA) on Hadoop clusters for processing large-scale genomic sequencing data.

Key Features:

• Hadoop integration: Parallelizes BWA alignment across Hadoop cluster nodes to reduce execution time for large-scale genomic datasets.
• Support for BWA algorithms: Executes BWA-MEM, BWA-ALN, and BWA-SW to handle different read types including paired-end and single-end data.
• Fault tolerance: Leverages Hadoop's fault-tolerance mechanisms to manage node failures without compromising data integrity or processing continuity.
• No source code modification required: Operates without modifying the original BWA source code.

Scientific Applications:

• High-throughput genomic research: Accelerating alignment of large sequencing datasets.
• Whole-genome alignment: Efficient alignment for whole-genome sequencing datasets.
• Targeted resequencing: Efficient alignment for targeted resequencing studies.
• Paired-end and single-end sequencing projects: Processing both paired and single reads.

Methodology:

Distributes alignment workload across a Hadoop cluster by parallelizing BWA (BWA-MEM, BWA-ALN, BWA-SW) across nodes and relying on Hadoop's fault-tolerance mechanisms while operating without changes to the BWA source code.