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identifying strain using pangolin and nextclade

Hi,

I have a 4contigs of SARS-CoV2 from a sample and I used pangolin and nextclade to identify their strain. Out of these 4 contigs, only 2 of those had an identified strain and for the other two none of these tools were successful in analyzing those. Does this mean they don't have known strain? Thanks

covid19 pangolin nextstrain strain nextclade
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written by eli_bayat • eli_bayat

1 answer

Please do not open multiple posts with same content: SARS-CoV2 strain identifying strain

You may either have incomplete data or if you do have full length sequence then the sites are not able to assign your genomes. You may also have new strain(s) that are not present in public databases if you actually have full length sequence. You will want to submit that data (If you are able) to relevant databases.

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written by GenoMax GenoMax

Thanks for the answer, sorry about that.

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written by eli_bayat • eli_bayat

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