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jaleezyy / covid-19-signal

Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
MIT License
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Uploader code #19

Open fmaguire opened 4 years ago

fmaguire commented 4 years ago

Write accessory scripts to upload clean reads as biosamples and final assembly to nexstrain/GISAID

fmaguire commented 4 years ago

Is this still a desired feature? To save login/API issues the easiest way to implement something close would be just to pre-generate all the tables and collate all the correct files for upload. Would also require the sample table expanding to including the metadata.

71 is part of this: so merging it in and closing:

"This code generates NCBI biosamples from GISAID sample information. Could form a useful template to work off. https://github.com/schultzm/gnb"