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A suggestion for a new database of Coronavirus #29
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I believe that older versions of this repository had other Coronavirus databases. Right on the spot, I don't remember the names and, having left JCVI over two years ago, I don't have the old files at hand. But we did convert to VIGOR4 format all the old VIGOR3 databases. Paolo |
Thanks for your kindly reply ! But i still have no idea about how to establish a local database. Can u go much further about the details ? What kind of files i should prepare and which parameters in configuration i should change for a new local database ? Actually I do have some CDS protein sequences in fasta format with which i want to used as references for my local database. And it is not clear for me about the splice_form="e6654" part in DB files can u explain this parameter for me ? Is it a indispensible parameter? How can i get the specific number just as "e6654" ? Sorry for my too many questions but it do have a lot of help for me to establish the local database for my latest subject ! Thanks too much for your kindly help ! |
Dear all, Can anyone help me with this problem ? I am waiting desperately for its necessity for my latest subject! Thanks all for this! |
Herry, Paolo |
Thanks Paolo. Harry, I'm getting file not found for files.zip, can you attach the file again so that I can review and help you. Thanks |
Sorry for not finding the files. Maybe the network was interruptted last time. I upload the files again. Thanks so much for both of you! "coronaviridae_db" and "coronaviridae_db.ini" were files i wanted to use to establish a whole coronaviridae database but still failed for proteins like RdRp. Can someone help me with this? Thanks to all! |
Dear developers,
Thanks so much for providing VIGOR4 which is a very convenient software for virus annotation, especially for SARS-CoV-2.
But can i suggest adding a new databse of coronavirus in view of some unpleasant annotation results for coronavirus which are a little far from SARS-Cov-2 in genetic distance. Or if it possible for us users to erect a local database on our own? Any instructions or script for local database establishment?
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