sara-javadzadeh / FastViFi

Detect viral infection and integration sites on NGS input. Manuscript is in preparation.
GNU General Public License v3.0
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ViFi vs FastVifi #4

Open pintoa1-mskcc opened 2 years ago

pintoa1-mskcc commented 2 years ago

Hello again,

I am trying to adapt FastVifi, having gotten an okay sense of ViFi, i am curious what exactly is the benefit of fastViFi? What differences are there between the two tools beyond the obvious?

Particularly, I was utilizing the 'toy' example from ViFi on FastVifi and hte original. I found that the original vifi will result in 943 integration sites found for hpv, but FastVifi finds 886. Is kraken somehow making this less sensitive? What was the purpose of the move to FastVifi.?

Also, I'd like to note that for some reason I cannot get the example that is provided by FastViFi working, but when I use the original toy example it works.