protospacer workbench

We have hosted the application protospacer workbench in order to run this application in our online workstations with Wine or directly.

Quick description about protospacer workbench:

Protospacer Workbench helps to design, analyze, and share CRISPR target-sites for any organism or set of FASTA formatted sequences.

Design of guide-RNAs for the CRISPR/Cas genome editing system is intuitively easy, but computationally difficult. The main difficulty arises from the need to identify potential off-targets that may be quite different from the intended target. Current online tools for guide-RNA design provide a user friendly interface to sequence mapping software such as Bowtie or BLAST. However, while fast, these mapping algorithms were not designed with a high tolerance to error, a feature critical to determining potential off-targets. Where online tools fail, offline tools succeed. However, offline tools require knowledge of the command line which few, who employ CRISPR, have. Protospacer Workbench aims to bridge the gap between online and offline guide-RNA design. The software is currently available for OS X and will be ported to other operating systems soon.

Features:

• Find all available CRISPR targets quickly
• Evaluate guide-RNA designs thoroughly
• Share targets and guide-RNA lists
• Design for any organism
• Manage multiple databases
• Step-by-step workflow
• Get reports on expected guide-RNA performance
• Make use of multiple third-party tools from one interface
• Multi-target design
• Manage large target/guide-RNA lists

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