search

reimandlab / ActiveDriverWGSR

ActiveDriverWGSR is an R package for discovery of cancer driver genes and non-coding elements in whole genome sequencing data
8 stars 7 forks source link

Is this software only suitable for whole genome sequencing data? what about whole #12

Closed stroke1989 closed 3 years ago

stroke1989 commented 3 years ago

Is this software only suitable for whole genome sequencing data? what about whole exome sequencing data?

reimand0 commented 3 years ago

Hi - this software is only for WGS data since it uses adjacent genomic regions to evaluate the background mutation rate of a genomic element. If exome sequencing data were to be used, then the background mutation rate would be underestimated and cause inflation of p-values and false positives. best, Jüri

On Sat, Nov 13, 2021 at 4:20 AM stroke1989 @.***> wrote:

Is this software only suitable for whole genome sequencing data? what about whole exome sequencing data?

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/reimandlab/ActiveDriverWGSR/issues/12, or unsubscribe https://github.com/notifications/unsubscribe-auth/AETAF7PZHWECDWBI24ZMMYDULYUXTANCNFSM5H6NSDXA . Triage notifications on the go with GitHub Mobile for iOS https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675 or Android https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub.