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  • Comparative Genomics - Make phylogenetic tree of species with available NCBI genomes

    Hello,

    I'm doing some comparative genomics and NCBI's taxonomy browser is useful for screening species with genomes available. I want to export this in Newick or some standard format so I can visualize it easily in R or ITOL.

    There isn't a mechanism to export a list though...

    Is there a method that doesn't take much time to pull species or IDs from NCBI that have published genomes and create an exportable tree? I don't do this often enough to know many of the resources.

    Specifically, I want a tree of all the species in Nematocera which have genomes.

    https://www.ncbi.nlm.nih.gov/Taxonom...ame=Nematocera

    Thanks for any help!

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