[R] Covid-19 Variants & Lineages

[Leonard Mada]

Dear Ivan,


Thank you very much.


Indeed, I missed the download button. The csv file seems to contain all 
the mutations in a usable format.


Sincerely,


Leonard


On 1/24/2023 11:29 PM, Ivan Krylov wrote:
> On Tue, 24 Jan 2023 22:26:34 +0200
> Leonard Mada via R-help <r-help using r-project.org> wrote:
>
>> The data on the NCBI page "Explore in SARS-CoV-2 Variants Overview"
>> seems very difficult to download:
>> https://www.ncbi.nlm.nih.gov/activ
>> E.g.: (in the lower-left corner, but impossible to copy)
>> NSP1: S135R
>> NSP13: R392C
> The page has a "download" button, which requests
> https://www.ncbi.nlm.nih.gov/genomes/VirusVariation/activ/?report=download_lineages
> and offers to save it as "lineages.csv".
>
> I think that the information you're looking for is available if you
> feed this URL to read.csv() and look at the aa_definition column.
>