MLST variant call

Question

[ambrinaakbar]

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

[WouterDeCoster]

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.

[ambrinaakbar]

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

[WouterDeCoster]

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).

[ambrinaakbar]

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.

[Pierre Lindenbaum]

what is MLST ?

[ambrinaakbar]

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