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CRISPRank: Genome Editing
This workflow designs sgRNA sequences for CRISPR genome editing experiments. It includes homology directed repair, base editing, and prime editing (3 and 3b).
Average = 1 hour 13 minutes
- Outlier run times occur when genomic data is very complex and/or contains many off-target sequences that need to be identified and scored.
Step 1: Navigate to CRISPRank: Genome Editing workflow on the Form Bio platform. You can use the search tool in the top right corner, or can find the workflow using the Genome Editing or Candidate Validation filters on the left-hand side.
Step 2: Select version v2.0.0 from the dropdown menu. You can view information about the workflow runs on this page. When ready to begin analysis, click Run Workflow in the top right corner.
Step 4: Launcher Tabs
- Select reference genome and annotation version
- Select files for analysis - you can upload/build a file in MAF or VCF file format
- Select the type of CRISPR edit or select all to take advantage of the ranking option
- Choose length of upstream and downstream sequences and PAM sequence for HDR - default is typical
- Choose the enzyme for Base Editing - default is typical
- Configure advanced settings for Prime Editing - default is typical
- Review settings and name the workflow run
- Click Run Workflow
- To view the results of your workflow run, first find your run in the Workflows tab.
- Once in the workflow viewer, click “Open Analysis” in the top right corner to start loading your workflow visualization. The process of loading your workflow could take a few minutes to complete, but you’ll be notified when it is ready for viewing.
- Your visualization will open in a separate tab. You can use the dropdown menus on the right to sort different edit locations. Use the tabs near the top of the screen to view the sgRNAs for each different CRISPR technique. You can copy the results of the analysis, or save them to either a CSV or Excel workbook
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