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Thinking beyond the blast table is there a programatic way to capture the information in this screenshot, AND more importantly to we want to standardize, discover, explore specific parameters? |
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Yes. The programmatic batch retrieval grabs EVERYTHING (as if you had checked all the boxes). |
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How do I programmatically retrieve via command-line? Do you have an example? |
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See You'll need to modify the input accession type in the Perl script to match whatever you're using. There's a link in the notebook to the SwissProt site and that should have mapping parameters to show you what you need as input/output accessions. |
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See
In [13]of this notebook:https://nbviewer.jupyter.org/github/RobertsLab/code/blob/master/notebooks/sam/20210601_ssal_gff-annotations.ipynb
You'll need to modify the input accession type in the Perl script to match whatever you're using. There's a link in the notebook to the SwissProt site and that should have mapping parameters to show you what you need as input/output accessions.