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federicogiorgi / giorgilab

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The maximum number of sequences accepted using Web tool #2

Open Shufan-uga opened 4 years ago

Shufan-uga commented 4 years ago

I have ~17000 aligned Covid sequences in a fasta file that I would like to perform variant calling and annotation with Coronapp. The fasta file was too big for the webtool. How many sequences can I submit at once? Can I run your code from a different platform that I won't be limited by the number of sequences?

Thank you!

federicogiorgi commented 4 years ago

Hi there. For those numbers, I can run them for you offline, or you can use the annotator.R script offline yourself :-)

Federico

On Mon, 5 Oct 2020 at 17:31, Shufan-uga notifications@github.com wrote:

I have ~17000 aligned Covid sequences in a fasta file that I would like to perform variant calling and annotation with Coronapp. The fasta file was too big for the webtool. How many sequences can I submit at once? Can I run your code from a different platform that I won't be limited by the number of sequences?

Thank you!

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Shufan-uga commented 4 years ago

Please run them offline for me. I will send the fasta file to you. How would like to recieve it? I will also try running the annotator.R script myself to compare our results.

federicogiorgi commented 4 years ago

Send me your email, I will send you the instructions :-)

Federico

On Mon, 5 Oct 2020 at 17:35, Shufan-uga notifications@github.com wrote:

Please run them offline for me. I will send the fasta file to you. How would like to recieve it? I will also try running the annotator.R script myself to compare our results.

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Shufan-uga commented 4 years ago

shufan.zhang@uga.edu. Thanks!

dimitris-vrachnos commented 3 years ago

Hello, I am also trying to run the script offline but I m having some difficulty. Can you send me some instructions as well? Many Thanks