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Merge pull request #4 from ncbi/main
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evolarjun authored Aug 7, 2024
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# StxTyper

StxTyper is used to determine stx type from nucleotide sequence. Stx (shiga-toxin) genes are found in some strains of _Escherichia coli_ and code for powerful toxins that can cause severe illness. StxTyper is software to classify these genes from assembled sequence using a standard algorithm.
StxTyper is used to determine stx type from nucleotide sequence. Stx (Shiga-toxin) genes are found in some strains of _Escherichia coli_ and code for powerful toxins that can cause severe illness. StxTyper is software to classify these genes from assembled sequence using a standard algorithm.

# Installation

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nonsense mutation
- __FRAMESHIFT__ where StxTyper detected an indel in the coding sequence
that would cause a frame shift in one or more of the subunits
- __AMBIGUOUTS__ StxTyper found an ambiguous base in the query sequence
- __AMBIGUOUS__ StxTyper found an ambiguous base in the query sequence
(e.g., N), this could be the result sequencing or assembly error so the
user might want to take a closer look at the sequence.
- __COMPLETE_NOVEL__ a full-length stx operon that is not typeable using
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