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@immunogenomics

Raychaudhuri Lab

Popular repositories

  1. harmony Public

    Fast, sensitive and accurate integration of single-cell data with Harmony

    R 340 79

  2. presto Public

    Fast Wilcoxon and auROC

    R 77 18

  3. symphony Public

    Efficient and precise single-cell reference atlas mapping with Symphony

    R 62 15

  4. cna Public

    Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

    Python 35 4

  5. LISI Public

    Methods to compute Local Inverse Simpson's Index (LISI)

    R 32 3

  6. HLA-TAPAS Public

    HLA-TAPAS pipeline for HLA association and fine-mapping studies

    Jupyter Notebook 24 9

Repositories

  • harmony Public

    Fast, sensitive and accurate integration of single-cell data with Harmony

    R 340 GPL-3.0 79 53 1 Updated Oct 16, 2022
  • cov-ldsc Public
    Python 8 3 1 0 Updated Oct 14, 2022
  • HLA_analyses_tutorial Public

    A thorough tutorial on HLA imputation and association, accompanying our manuscript "Tutorial: A statistical genetics guide to identifying HLA alleles driving complex disease"

    Jupyter Notebook 2 GPL-3.0 0 0 0 Updated Sep 26, 2022
  • RA_GWAS Public

    Trans-ancestry GWAS of rheumatoid arthritis

    Jupyter Notebook 2 0 0 0 Updated Aug 17, 2022
  • symphony Public

    Efficient and precise single-cell reference atlas mapping with Symphony

    R 62 GPL-3.0 15 11 0 Updated Aug 11, 2022
  • IMPACT Public

    Code for creating cell-type-specific regulatory element annotation files

    R 16 GPL-3.0 8 0 2 Updated Jul 7, 2022
  • singlecellmethods Public

    Collection of useful methods for single cell analysis

    Jupyter Notebook 11 GPL-3.0 3 1 0 Updated Jun 27, 2022
  • TteK Public

    TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells

    Jupyter Notebook 0 0 0 0 Updated Jun 24, 2022
  • TiRP Public

    code repository for Lagattuta et al. "Repertoire analyses reveal T cell receptor sequence features that influence T cell fate." Nat. Imm. (2022)

    Jupyter Notebook 7 GPL-3.0 5 1 0 Updated May 28, 2022
  • cna Public

    Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

    Python 35 GPL-3.0 4 1 0 Updated May 16, 2022
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