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Create Submission_to_NCBI.md #52

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Thomieh73 wants to merge 7 commits into dev from Thomieh73-NCBI_submission

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Thomieh73 commented Feb 26, 2024

I have created a document describing the submission process of one or more bacterial genomes using the NCBI submission system.


          Create Submission_to_NCBI.md

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I have created a document describing the submission process of one or more bacterial genomes using the NCBI submission system.

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karinlag left a comment

Looks good, some small confusing issues, but should be easily resolved.

Thomieh73 added 4 commits

April 8, 2024 16:05


          Updated Submission_to_NCBI.md

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          Updated Submission_to_NCBI.md

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I need to rewrite the document because the submission process is very different from the way I had written it up the last time.


          Wrote the text for the bioproject submission on Submission_to_NCBI.md

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          Updated the Submission_to_NCBI.md...

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with the text for submission of BioSamples to the NCBI databases

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Thomieh73 commented Apr 24, 2024

Hi @karinlag Can you read the text for the NCBI Submission of reads to the SRA database using VIGAS. It turns out that it is needed that you do it like this:

Check if Bioproject is there or not?
If there is not a bioproject then create it.
If there is a bioproject you can go straight to creating a biosample(s) registration.
When a bioproject is available you can now create Biosamples
When Bioproject and Biosamples have been registered at NCBI, you can select the sequence samples in VIGAS for submission to the SRA database.

I have not yet written the last step.

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karinlag commented Apr 24, 2024

@ajkarloss since you are handling the VIGAS sysstem, can you give me a first pass over this before I dig in?

Thomieh73 added 2 commits

May 8, 2024 14:22


          Updated the text of Submission_to_NCBI.md

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          Updated Submission_to_NCBI.md

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I added how to submit using VIGAS.
And I added how to check if the submission worked.

novica changed the base branch from main to dev

July 2, 2024 09:32

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novica commented Sep 19, 2024

Are people still working on this?

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