Reporting - Githubissues

medvir / VirMet

Set of tools for viral metagenomics.

13 stars 5 forks source link

Reporting #8

Closed mihuber closed 8 years ago

mihuber commented 8 years ago

[x] NA in species list
[ ] turn on/off reporting of human endogenous retroviruses
[ ] mark usual suspects (HIV-2, choristoneura, uncultured marine virus) as contamination?

ozagordi commented 8 years ago

N/A in species list should be corrected with a correct updating of the databases. It should work now but we will see with time.

Endogenous retroviruses are reported because of an insufficient decontamination of human reads, I would keep them because it's also a sign of quality.

Usual suspects can also be a proxy to get how well we decontaminated and for this reason I would keep them (also, we might one day really sequence a HIV-2 sample).