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Fast vcf parsing#48

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dramanica merged 21 commits intomainEvolEcolGroup/tidypopgen:mainfrom fast_vcfEvolEcolGroup/tidypopgen:fast_vcfCopy head branch name to clipboardAug 9, 2024

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Commits on Jun 20, 2024

• initial ideas for a fast vcf parser

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Commits on Jun 21, 2024

• Initial implementation of a fast c++ parser

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Commits on Jun 22, 2024

• initial check to pin down bug when reading in chunks

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• fast parser fixed for multiple passes

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Commits on Jun 23, 2024

• fix parsing of missing loci names

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• speed up the vcf parser

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• more speed

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• write to FBM with openmp

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Commits on Jun 24, 2024

• lz linking for windows

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Commits on Jun 25, 2024

• remove ploidy names

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Commits on Jun 27, 2024

• clean up

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• genotype conversion

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• vcf writer first draft

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• Merge branch 'main' into fast_vcf

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Commits on Jul 1, 2024

• expoxt gt_as_vcf

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• typo

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• add chunk size to gt_as_vcf

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• move gt_as_vcf to R directory

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• fix saving as vcf

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• fix all check errors

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• limit vcf writing to only diploid data

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