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This repository has been archived by the owner on Jan 7, 2024. It is now read-only.

jgoodson/SeqDB

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SeqDB Uniprot Local Mirror

Project containing scripts to build and access a local database containing UniprotKB protein info via a Python interface using an LMDB or MongoDB backend.

This is used for scripts that need to perform many random queries to fetch protein sequences without hitting a web API constantly (slow, probably annoys the server). Essentially this is a fancy cache that lets you quickly fetch by multiple types of accessions/IDs.

The LMDB backend is now the default since it is fully embedded and does not require a server.

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UniprotKB local "mirror" access database

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