search

lskatz / mlst-hash-template

This is a template for any new hash-based MLST database
GNU General Public License v3.0
5 stars 2 forks source link

Start/stop codon #9

Closed lskatz closed 2 years ago

lskatz commented 2 years ago

Add a standard attribute if the start and/or stop codon is present in the allele

chrisgulvik commented 2 years ago

The value here with codons specified are that certain cgMLST callers might expect only certain codons as a verification the gene is fully intact.

An additional feature option to consider would be gene length (in basepairs). Unsure if this is a valuable addition or makes it unnecessarily complicated though.

lskatz commented 2 years ago

Might need to think of indels. Could use a CIGAR string?