Add documentation for user database construction
Issue #2
resolved
I was not able to find documentation to build a user-defined database instead of using the GS database. I want to use the faser algorithm within the mifaser framework, but would like added flexibility to build my own database (particularly UniRef90).
Comments (2)
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- changed status to resolved
We just released version 1.49 which allows to create a user defined database (using argument -D/--createdb). Creating a new reference database requires a multi-FASTA file containing annotations and e.c-numbers in the header using the format:
>uniprot_id|annotation|e.c.-number|additional_details
than run mi-faser with:
$ python mifaser.py -D my_database path/to/sequences.fasta
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We are working on providing alternative databases; for that purpose we will add a script to generate the required database for alternative selections of reference sequences - this should be done within the coming week.