You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
With the current way of doing the qc in tbprofiler, we would likely weed out quite a few false minority variants if we add --calling_params '-q 15' to the tb-profiler profile command. This would remove a lot of the noise. This is slightly hacky since it would only work well on Illumina data generated with the new Q value binning system they started with on the NovaSeq.
The text was updated successfully, but these errors were encountered:
Seems from your description that that --calling_params '-q 15' might be too specific for a general rule. I think this is something that instead could go into the documentation and should be up to the individual users to configure.
With the current way of doing the qc in tbprofiler, we would likely weed out quite a few false minority variants if we add
--calling_params '-q 15'
to thetb-profiler profile
command. This would remove a lot of the noise. This is slightly hacky since it would only work well on Illumina data generated with the new Q value binning system they started with on the NovaSeq.The text was updated successfully, but these errors were encountered: