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mccoy-lab

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  1. MAGE MAGE Public

    Analysis of gene expression and splicing diversity in a subset of samples from the 1000 Genomes Project, including eQTL and sQTL discovery and annotation.

    R 32 3

  2. LD-PGTA LD-PGTA Public

    Linkage disequlibrium-informed PGT-A (LD-PGTA). A package for detecting genotypic signatures of aneuploidy from extremely low-coverage sequence data.

    Python 16

  3. t2t-variants t2t-variants Public

    Code associated with the manuscript "A complete reference genome improves analysis of human genetic variation".

    R 17 3

  4. LD-CHASE LD-CHASE Public

    A tool for linkage disequilibrium-informed comparison of haplotypes among sibling embryos.

    Python 4

  5. sv_selection sv_selection Public

    Code for Yan et al., "Local adaptation and archaic introgression shape global diversity at human structural variant loci."

    R 5 2

  6. rhapsodi rhapsodi Public

    R haploid sperm/oocyte data imputation (rhapsodi). A package for analysis of low-coverage single-cell sequencing data from multiple gametes.

    R 4

Repositories

Showing 10 of 14 repositories
  • aneuploidyRates Public

    A repository for an R package that estimates the meiotic and mitotic aneuploidy rates of an embryo

    mccoy-lab/aneuploidyRates’s past year of commit activity
    R 1 GPL-3.0 1 0 1 Updated Dec 28, 2024
  • hgv_modules Public

    Teaching modules for Human Genome Variation Lab.

    mccoy-lab/hgv_modules’s past year of commit activity
    R 19 CC-BY-4.0 3 0 0 Updated Jul 31, 2024
  • MAGE Public

    Analysis of gene expression and splicing diversity in a subset of samples from the 1000 Genomes Project, including eQTL and sQTL discovery and annotation.

    mccoy-lab/MAGE’s past year of commit activity
    R 32 3 0 0 Updated Jul 19, 2024
  • LD-CHASE Public

    A tool for linkage disequilibrium-informed comparison of haplotypes among sibling embryos.

    mccoy-lab/LD-CHASE’s past year of commit activity
    Python 4 0 0 0 Updated Oct 13, 2023
  • transmission-distortion Public

    Analysis scripts for "A method for low-coverage single-gamete sequence analysis demonstrates adherence to Mendel's first law across a large sample of human sperm" https://elifesciences.org/articles/76383

    mccoy-lab/transmission-distortion’s past year of commit activity
    R 1 0 0 0 Updated Aug 21, 2023
  • t2t-variants Public

    Code associated with the manuscript "A complete reference genome improves analysis of human genetic variation".

    mccoy-lab/t2t-variants’s past year of commit activity
    R 17 3 1 0 Updated Jan 17, 2023
  • CSHL_seqtec_2022 Public
    mccoy-lab/CSHL_seqtec_2022’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Nov 18, 2022
  • pot1_ch_2022 Public

    Code for DeBoy & Tassia et al., Familial clonal hematopoiesis in a long telomere syndrome.

    mccoy-lab/pot1_ch_2022’s past year of commit activity
    Shell 0 0 0 0 Updated Nov 1, 2022
  • LD-PGTA Public

    Linkage disequlibrium-informed PGT-A (LD-PGTA). A package for detecting genotypic signatures of aneuploidy from extremely low-coverage sequence data.

    mccoy-lab/LD-PGTA’s past year of commit activity
    Python 16 MIT 0 1 0 Updated Oct 10, 2022
  • rhapsodi Public

    R haploid sperm/oocyte data imputation (rhapsodi). A package for analysis of low-coverage single-cell sequencing data from multiple gametes.

    mccoy-lab/rhapsodi’s past year of commit activity
    R 4 0 0 0 Updated Jul 25, 2022
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