Joyce, You can use searchHits2, buildFeatureVectorForScoring, and getOfftargetScore2. However, I suggest you use the workflow function offTargetAnalysis for offTarget search for both scoring methods. For more information, please refer to http://bioconductor.org/packages/release/bioc/vignettes/CRISPRseek/inst/doc/CRISPRseek.pdf Best, Julie Sent from my iPhone On Oct 17, 2017, at 8:07 AM, joyce.lee.egenesis [bioc] <noreply@bioconductor.org<mailto:noreply@bioconductor.org>> wrote: Activity on a post you are following on support.bioconductor.org<https: support.bioconductor.org=""> User joyce.lee.egenesis<https: support.bioconductor.org="" u="" 14189=""/> wrote Question: CFD scores for searchHits?<https: support.bioconductor.org="" p="" 101703=""/>: I would like to find off-targets of the gRNAs we designed in a 30kb sequence. I could get the Hsu-Zhang scores with the combination of searchHits, buildFeatureVectorForScoring, and getOfftargetScore. Is it possible to get the CFD scores with some options? Thank you! ________________________________ Post tags: crisprseek You may reply via email or visit CFD scores for searchHits?