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extend pipeline for genotype calling and genotype likelihood #12

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sjordi opened this issue May 13, 2016 · 0 comments

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frideas

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sjordi commented May 13, 2016 •

edited by hettling

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install GATK in a docker containe. GATK github repository
call genotypes using gatk
install ANGSD in a docker container
calculate genotype likelihood with ANGSD
extend pipeline script to include genotype calling and genotype likelihood
run pipeline
compare results between threshold genotype calling and genotype likelihood
push GATK and ANGSD containers to Docker hub for later re-usage

hettling added the frideas label

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