BOAT

Application data
Principal bioinformatics method(s)	Read mapping
Maintained?	Maybe
Licence	GPL

Summary: Can accurately and efficiently map sequencing reads back to the reference genome.

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BOAT can handle several substitutions and indels simultaneously, a useful feature for identifying SNPs and other genomic structural variations in functional genomic studies. For better handling of low-quality reads, BOAT supports a "3'-end Trimming Mode" to build local optimized alignment for sequencing reads, further improving sensitivity. BOAT calculates an E-value for each hit as a quality assessment and provides customizable post-mapping filters for further mapping quality control.