question about provirus

AnantharamanLab / VIBRANT

Virus Identification By iteRative ANnoTation

GNU General Public License v3.0

142 stars 37 forks source link

question about provirus #78

Open liucong0429 opened 1 year ago

liucong0429 commented 1 year ago

i want to know if it contains provirus sequences in the output contigs file after running vibrant?

KrisKieft commented 1 year ago

There is a "prophage coordinates" spreadsheet generated which lists the integrated proviruses. These viruses will also contain the nomenclature "fragment#" in the sequence names. The sequences are found either in the "combined" or in the "lysogenic" files.