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MLST variant call
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3.2 years ago
ambrinaakbar • 10
@ambrinaakbar43123

Hi, Could anyone guide me about the varinats call for whole MLST database?As MLST database contain FASTA or MEGA format files. Thank you

snp sequence next-gen • 377 views
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I don't think the tag "software error" is accurate here. Your question contains insufficient information to get an answer, please elaborate on the data you have and what you aim to obtain.

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Thank you. I would like to analyse variant on whole MLST database. For this purpose I would like to design a workflow

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Now, explain this again but imagine you are explaining this to a bioinformatician who doesn't know anything about the research topic you are doing. As Pierre already asked: we don't know what MLST means and what's in the database. We don't know which data you have.

And don't forget: AAA (Always Avoid Abbreviations).

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MLST (Multilocus sequence typing database http://saureus.beta.mlst.net). Here around 80 different microbial data is present. I would like to make vcf files trimmed, aligned sequence files deposited here.

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what is MLST ?

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Multi Locus Sequence Typing. It is an unambiguous characterizing tool for bacteria, uses internal fragment of housekeeping genes.

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