can't run viruspy with data not in the SRA database

[pcantalupo]

This issue is for those who want to run viruspy against sequences that are not in the SRA database. A clear case for this is somebody that did their own sequencing and has a set of FASTQ files that they want to analyze.

[DCGenomics]

Magicblast can handle fastq files, so it should be relatively trivial.

Cheers!

Ben

On Sep 28, 2017 4:07 PM, "Paul Cantalupo" [email protected] wrote:

This issue is for those who want to run viruspy against sequences that are not in the SRA database. A clear case for this is somebody that did their own sequencing and has a set of FASTQ files that they want to analyze.

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[pcantalupo]

Update...added -query option support in magicblast_w_opts.sh script (802a23d0d6c45cb56b17c9717668348b45833b6a) but still need to implement the -infmt option to accept fastq files