Is there a way to do batch queries to IMGT HighV-Quest db?

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7.7 years ago

uki ▴ 40

We have several million sequences divided across multiple (20+) files varying in size, some of which may contain up to 2M sequences. I've realized that IMGT HighV-quest web query has a limit of 500K sequences per query. Is there a way to batch queries or any mirror of this database that doesn't have such a limit? A web API that one can query towards perhaps?

Alternatively, if the db is available for download, how can I set it up on my machine for doing these queries locally?

imgt ig sequencing • 2.9k views

ADD COMMENT • link 7.6 years ago by uki ▴ 40

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What is your end goal?

You can download IMGT full database here for both nucleotide and AA in both gapped and ungapped sequences. You can make a blast database from this file, and give ig-blast a try. BTW, I tried IMGT V-Quest with 60 sequences and i received an error that the limit was 50 sequences no 50K.