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kamimrcht / REINDEER

REINDEER REad Index for abuNDancE quERy
GNU Affero General Public License v3.0
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Can this be used to extract the match origins? #9

Closed rickbeeloo closed 4 years ago

rickbeeloo commented 4 years ago

Hey!

We are interested in indexing genomes and subsequently search these. In this case can Reindeer also return the genome ids and corresponding locations?

rchikhi commented 4 years ago

Hi, it cannot! Reindeer only records the abundance of kmers, not their genome or read location. For indexing genomes like you want to do, you may try to use a hash table or a FM-index. Rayan