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Question: CFD scores for searchHits?
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gravatar for joyce
11 months ago by
joyce0
joyce0 wrote:

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!

ADD COMMENTlink modified 11 months ago by Julie Zhu3.8k • written 11 months ago by joyce0
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gravatar for Julie Zhu
11 months ago by
Julie Zhu3.8k
United States
Julie Zhu3.8k wrote:
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?
ADD COMMENTlink written 11 months ago by Julie Zhu3.8k
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