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jeff-k / clockwork

CRyPTIC data processing pipelines

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Clockwork

Pipelines for processing bacterial sequence data (Illumina only) and variant calling

Note: these pipelines were developed for the CRyPTIC project which studies M. tuberculosis, but in principle can be used on any bacteria.

Clockwork takes fastq input and outputs standard VCF files as output

Please see the clockwork wiki page for documentation.

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CRyPTIC data processing pipelines

License:MIT License

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