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add strand flip check #67

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add strand flip check #67

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Commits on Sep 25, 2024

  1. start strand flip functions

    @alkaZeltser
    alkaZeltser committed Sep 25, 2024
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Commits on Sep 26, 2024

  1. include ambiguous strand flip designation

    @alkaZeltser
    alkaZeltser committed Sep 26, 2024
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  2. strand flip test

    @alkaZeltser
    alkaZeltser committed Sep 26, 2024
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  3. code indel reverse complement strand flip

    @alkaZeltser
    alkaZeltser committed Sep 26, 2024
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Commits on Sep 27, 2024

  1. add indel tests

    @alkaZeltser
    alkaZeltser committed Sep 27, 2024
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  2. drop leading INDEL variant

    @alkaZeltser
    alkaZeltser committed Sep 27, 2024
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Commits on Oct 23, 2024

  1. update INDEL flip handling - no flipping

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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  2. update param name alleles

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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  3. update strand flip tests

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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  4. export flip.DNA.allele

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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  5. add dna flip manual

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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  6. complete strand flip assessment function

    @alkaZeltser
    alkaZeltser committed Oct 23, 2024
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Commits on Oct 24, 2024

  1. add tests for input handling and correct function

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    alkaZeltser committed Oct 24, 2024
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Commits on Oct 25, 2024

  1. add multiallelic cases

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  2. for loop next bug fix

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  3. add manual for allele match assessment

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  4. add function documentation

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  5. remove unneeded test code

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  6. update NA handling

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  7. add NA handling tests

    @alkaZeltser
    alkaZeltser committed Oct 25, 2024
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  8. update docs

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    alkaZeltser committed Oct 25, 2024
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Commits on Oct 26, 2024

  1. update test data with other_allele

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    alkaZeltser committed Oct 26, 2024
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Commits on Oct 29, 2024

  1. implement strand flip checking in apply.polygenic.score

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    alkaZeltser committed Oct 29, 2024
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  2. create new test data for strand flip checking

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    alkaZeltser committed Oct 29, 2024
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  3. tweak dosage calculator to handle missing risk alleles

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    alkaZeltser committed Oct 29, 2024
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  4. update dosage calculator test cases

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    alkaZeltser committed Oct 29, 2024
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  5. add pgs application test cases

    @alkaZeltser
    alkaZeltser committed Oct 29, 2024
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  6. update manual

    @alkaZeltser
    alkaZeltser committed Oct 29, 2024
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  7. export assess.pgs.vcf.allele.match

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    alkaZeltser committed Oct 29, 2024
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Commits on Oct 30, 2024

  1. update manual

    @alkaZeltser
    alkaZeltser committed Oct 30, 2024
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  2. update vignette

    @alkaZeltser
    alkaZeltser committed Oct 30, 2024
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  3. update readme

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    alkaZeltser committed Oct 30, 2024
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Commits on Oct 31, 2024

  1. complete merge

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  2. update vignette data

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  3. update news

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  4. lintr fixes

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  5. lintr fixes

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  6. fix example bug

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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  7. fix example bug

    @alkaZeltser
    alkaZeltser committed Oct 31, 2024
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Commits on Nov 25, 2024

  1. update manual

    @alkaZeltser
    alkaZeltser committed Nov 25, 2024
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  2. add Discussion link to vignette

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    alkaZeltser committed Nov 25, 2024
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