Where to download the Plasmid fasta file？

CCB-SB / plsdb

PLSDB pipeline to collect bacterial plasmids from NCBI

https://ccb-microbe.cs.uni-saarland.de/plsdb/

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Closed Winjor closed 5 years ago

Winjor commented 5 years ago

Hi, where to download the plasmid fasta file？I downloaded the ZIP archive form https://ccb-microbe.cs.uni-saarland.de/plsdb/plasmids/download/， but not found the fasta file. I want to use the fasta to build a bwa index for bwa align. Thanks.

VGalata commented 5 years ago

Dear @Winjor,

The FASTA file can be extracted from the BLAST database included in the download:

blastdbcmd -entry all -db <database label> -out <outfile>

I will include this information into the README file in the next update.