Allow optionally specifying the Subsequence string so that it can be used to create repair template.

breaks-software / Candida-CRISPR-Target-Notebook

This Google Colab Notebook is intended to be used to speed the processing and identification of target gRNA sequences for introduction to Candida species via CRISPR techniques.

MIT License

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Allow optionally specifying the Subsequence string so that it can be used to create repair template. #6

Closed breaks-software closed 4 years ago

breaks-software commented 4 years ago

Is there a way to manually create the subsequence that will be searched by the EuPaGDT server? After having inserted by gRNA into the sequence I want to be able to use THAT sequence in this tool to then find an appropriate site to insert my repair template.

breaks-software commented 4 years ago

commit efb022fe4ea49dfcbcb8e9388494e4b5d70ab63a includes a form field to specify the desired subsequence, instead of the snip specified by the base indices. Waiting for full verification.

breaks-software commented 4 years ago

In this scenario, the results of interest from the EuPaGDT server will have "On target hits..." of "0 | 0". But we're filtering the results to restrict to "1 | 0". Please conditionally filter by the relevant on-target hits value accordingly.

breaks-software commented 4 years ago

Sunil confirmed that this works as he expected. closing.