Is there an C++ tool to implement GATK ?

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7.2 years ago

winter_li ▴ 60

HI , I am familiar with C++, so is there a tool to implement GATK using C++ ?

Best!

GATK genome SNP next-gen • 1.9k views

ADD COMMENT • link 7.2 years ago by winter_li ▴ 60

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system("java -Xmx5g -jar GenomeAnalysisTK.jar");

ADD REPLY • link 7.2 years ago by andrew.j.skelton73 6.5k

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What do you mean with "implement"?

ADD REPLY • link 7.2 years ago by WouterDeCoster 47k

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That should mean "re-code" but we have no additional context :)

ADD REPLY • link 7.2 years ago by GenoMax 141k

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That's what it means, but I don't think it's what OP means :-)

ADD REPLY • link 7.2 years ago by WouterDeCoster 47k

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HI, It' means to re-write GATK to use C++ or other language.

ADD REPLY • link 7.1 years ago by kaixian110 • 0

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GATK is a set of numerous tools using map/reduction of data. Some tools already exist as a C++ program (e.g: SelectVariants can be compared to bcftools view ).

ADD REPLY • link 7.2 years ago by Pierre Lindenbaum 161k

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