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Publish Version III of the SNP+TR reference haplotype panel #27

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Publish Version III of the SNP+TR reference haplotype panel #27

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Commits on Aug 5, 2024

  1. adding draft script to fix reference

    Melissa Gymrek authored and Melissa Gymrek committed Aug 5, 2024
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Commits on Aug 6, 2024

  1. add convert to bref3

    @nicholema
    nicholema committed Aug 6, 2024
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  2. add script to download hg38 ref panel

    @nicholema
    nicholema committed Aug 6, 2024
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  3. fix bug

    @nicholema
    nicholema committed Aug 6, 2024
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Commits on Aug 8, 2024

  1. add INFO field VT=OTHER/TR

    @nicholema
    nicholema committed Aug 8, 2024
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Commits on Aug 14, 2024

  1. updating how we get locus IDs to accommodate duplicates

    Melissa Gymrek authored and Melissa Gymrek committed Aug 14, 2024
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  2. fix merge conflict

    Melissa Gymrek authored and Melissa Gymrek committed Aug 14, 2024
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Commits on Aug 31, 2024

  1. checks to remove loci with too many or too few alleles

    Melissa Gymrek authored and Melissa Gymrek committed Aug 31, 2024
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  2. update readme with description of fixes

    Melissa Gymrek authored and Melissa Gymrek committed Aug 31, 2024
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Commits on Sep 6, 2024

  1. updating print statements in fix ref script

    Melissa Gymrek authored and Melissa Gymrek committed Sep 6, 2024
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  2. overhaul of fixref script to remove alleles with count=0

    Melissa Gymrek committed Sep 6, 2024
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  3. remove convert to bref script

    Melissa Gymrek committed Sep 6, 2024
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  4. update to write to stdout so we can pipe to bgzip

    Melissa Gymrek committed Sep 6, 2024
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  5. fix readme format issue

    Melissa Gymrek committed Sep 6, 2024
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  6. fix readme format issue

    Melissa Gymrek committed Sep 6, 2024
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Commits on Sep 9, 2024

  1. update the main README.md and make some changes on the fix_ensembletr… 

    …_snpstr_reference.py
    @yli091230
    yli091230 committed Sep 9, 2024
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  2. Merge pull request #26 from yli091230/fix-ref 

    update the main README.md and make some changes on the fix_ensembletr…
    @gymreklab
    gymreklab authored Sep 9, 2024
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Commits on Sep 10, 2024

  1. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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  2. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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  3. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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  4. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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  5. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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  6. adding links to v3 panel

    Melissa Gymrek authored and Melissa Gymrek committed Sep 10, 2024
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Commits on Sep 23, 2024

  1. use bref3

    Melissa Gymrek authored and Melissa Gymrek committed Sep 23, 2024
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Commits on Sep 24, 2024

  1. update fixref script to remove duplicates

    Melissa Gymrek authored and Melissa Gymrek committed Sep 24, 2024
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  2. document rm dups for fix-ref

    Melissa Gymrek authored and Melissa Gymrek committed Sep 24, 2024
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Commits on Sep 27, 2024

  1. fix file name, remove duplicate loci and update README

    @yli091230
    yli091230 committed Sep 27, 2024
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  2. Merge pull request #28 from yli091230/fix-ref 

    fix file name, remove duplicate loci and update README
    @gymreklab
    gymreklab authored Sep 27, 2024
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Commits on Nov 3, 2024

  1. fix issue with REF count 0 in fix ref script

    Melissa Gymrek authored and Melissa Gymrek committed Nov 3, 2024
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Commits on Nov 5, 2024

  1. Merge pull request #29 from gymrek-lab/fix-noref-issue 

    fix issue with REF count 0 in fix ref script
    @yli091230
    yli091230 authored Nov 5, 2024
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Commits on Nov 6, 2024

  1. fix the missing reference allele

    @yli091230
    yli091230 committed Nov 6, 2024
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  2. Merge pull request #30 from yli091230/fix-ref 

    Fix missing reference
    @yli091230
    yli091230 authored Nov 6, 2024
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