Next, simply execute RfxCas13d_GuideScoring.R by providing 3 required input arguments:
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@@ -62,7 +62,8 @@ Once Cas13design is fully installed, the run time scales with the fasta input le
Our software extracts all information needed from the target input sequence, including base probabilities, RNA-RNA hybridization energies, RNA target site accessibility or guide RNA folding.
The minimum length supplied must be at least 30 nucleotides. The total run time for the provided ~1000nt test.fa example is about 2 min.
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### Output
The output may be 3-fold and named after the fasta header information:
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@@ -85,17 +86,17 @@ Guide scores range between a 0 - 1 interval, with higher scores being indicative
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![alt text](./data/ExampleS.png"USA/NY1-PV08001/2020 S gene")
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### Bulk predictions
## Bulk predictions
To predict guide RNA scores for all corona virus genes, one can use a simple wrapper. In this case, all jobs are send as individual jobs to a computation cluster.
