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Short Read Sequence Typing

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Update - SRST2 Now Available
25 Sep, 2013

This project has now been replaced by SRST2 - Short Read Sequence Typing for Bacterial Pathogens, available at

The new SRST2 program does gene typing as well as MLST (e.g. typing resistance genes, virulence genes, etc). SRST2 is faster and more accurate than the old SRST, using bowtie2 to achieve local alignments (no need for flanking sequences) and a brand new scoring system.

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