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18 lines
967 B
Text
18 lines
967 B
Text
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Bowtie is an ultrafast, memory-efficient short read aligner geared
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toward quickly aligning large sets of short DNA sequences (reads) to
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large genomes. It aligns 35-base-pair reads to the human genome at a
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rate of 25 million reads per hour on a typical workstation. Bowtie
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indexes the genome with a Burrows-Wheeler index to keep its memory
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footprint small: for the human genome, the index is typically about
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2.2GB (for unpaired alignment) or 2.9GB (for paired-end or colorspace
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alignment). Multiple processors can be used simultaneously to achieve
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greater alignment speed. Bowtie can also output alignments in the
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standard SAM format, allowing Bowtie to interoperate with other tools
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supporting SAM, including the SAMtools consensus, SNP, and indel
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callers.
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If you use Bowtie for your published research, please cite:
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Langmead B, Trapnell C, Pop M, Salzberg SL.
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Ultrafast and memory-efficient alignment of short DNA sequences to
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the human genome. Genome Biol 10:R25.
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