Commit 0609a756 authored by harm's avatar harm
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Update Readme.md

parent 7f7359d5
......@@ -41,7 +41,7 @@ cd ~/path/to/Cas13design
ls -ltr ./data/*fasta
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### Predict guide RNA scores
Next, simply execute RfxCas13d_GuideScoring.R by providing 3 required input arguments:
......@@ -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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| ... | ... |... |... | ... |... |... |
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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.
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