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phylogeny for similar consensus sequences

Hi,

I'm looking for a software to do phylogenic trees from related consensus sequences of viruses.

I have already tried realphy and nextstrain. I don't know if Realphy is still curated and Nexstrain seems specific to covid.

I also tried snpiphy which is very good but using one fasta reference and fastq files (I want to compare my data to several consensus references).

Have you any advice/recommendations about other softwares to do that?

Thanks

phylogeny
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updated by Ali May • Ali May • written by vmicrobio vmicrobio

1 answer

If you select an appropriate reference (R) that is closely related to both your data (D) and the sequences you want to compare to (S), you should be able compare D to S by querying them together against R using a tool like snpiphy.

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written by Ali May • Ali May

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