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, 11:25, 2 February 2017
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| This variant calling pipeline has two steps. (step 1) promotion of a set of potential polymorphisms; and (step 2) genotype/haplotype calling using LD information. | | This variant calling pipeline has two steps. (step 1) promotion of a set of potential polymorphisms; and (step 2) genotype/haplotype calling using LD information. |
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− | === (step 1) Site promotion using software glfMultiples [https://www.sph.umich.edu/csg/yli/GPT_Freq.011.source.tgz GPT_Freq] === | + | === (step 1) Site promotion using software glfMultiples [https://csg.sph.umich.edu//yli/GPT_Freq.011.source.tgz GPT_Freq] === |
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| GPT_Freq -b my.out -p 0.9 --minDepth 10 --maxDepth 1000 *.glf | | GPT_Freq -b my.out -p 0.9 --minDepth 10 --maxDepth 1000 *.glf |