Snoopy
Browser based quality control tool to expedite reviewing predicted variants in next generation sequencing files.
Snoopy is a browser-based quality control tool that allows the user to quickly visually review many batches of predicted variants from sequence files (BAM/CRAM). The steps of usage are:
- Construct a json file to list your sequence files (locally, HTTP/S, or SSH) and a set of variants sites
- Start snoopy from the command line
- In the browser load the json file
- Click 'variant', 'not variant', 'uncertain' at each predicted variant site
- Save the results which includes your decisions and a snapshot of each location
Downloads
Snoopy requires python (2 or 3) and pip. To install:
pip install snoopy
Further information
For more information see:
- The repository: https://github.com/wtsi-medical-genomics/snoopy
- The documentation: http://snoopy.readthedocs.io/
GNU GENERAL PUBLIC LICENSE Version 3
Contact
If you need help or have any queries, please contact us using the details below.
Sanger Institute Contributors
Previous contributors
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Dr Jeffrey Barrett
Former Director of the COVID-19 Genomics Initiative at the Wellcome Sanger Institute
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Dan Rice
Senior Software Developer