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@shendurelab

Jay Shendure's lab at the University of Washington

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  1. LACHESIS LACHESIS Public

    The LACHESIS software, as described in Nature Biotechnology (http://dx.doi.org/10.1038/nbt.2727)

    C++ 76 32

  2. cfDNA cfDNA Public

    Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA

    Python 63 30

  3. MPRAflow MPRAflow Public

    A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data

    Python 31 16

  4. mouse-atac mouse-atac Public

    Repo for website and other code for mouse sci-ATAC-seq project

    Python 28 29

  5. single-cell-ko-screens single-cell-ko-screens Public

    Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hill, McFaline-Figueroa et al.

    R 26 10

  6. MIPGEN MIPGEN Public

    One stop MIP design and analysis

    C++ 22 19

Repositories

Showing 10 of 27 repositories
  • shendurelab/multiplex_scCRISPRa_screening’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 24, 2024
  • Diversified_Parts Public

    Analysis and visualization code for "Diversified, miniaturized and ancestral parts for mammalian genome engineering and molecular recording"

    shendurelab/Diversified_Parts’s past year of commit activity
    0 0 0 0 Updated Sep 16, 2024
  • Human-RA-Gastruloid Public

    Code relevant for analysis of human RA gastruloids

    shendurelab/Human-RA-Gastruloid’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jun 18, 2024
  • MMCA Public

    The scripts used for performing data analysis in the MMCA project

    shendurelab/MMCA’s past year of commit activity
    R 3 MIT 0 1 0 Updated Jun 12, 2024
  • scQers Public

    Scripts, plasmid maps, and amplicon maps for: Multiplex profiling of developmental enhancers with quantitative, single-cell expression reporters

    shendurelab/scQers’s past year of commit activity
    R 3 MIT 1 0 1 Updated May 20, 2024
  • MPRAflow Public

    A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data

    shendurelab/MPRAflow’s past year of commit activity
    Python 31 Apache-2.0 16 11 2 Updated Jan 24, 2024
  • ENGRAM Public
    shendurelab/ENGRAM’s past year of commit activity
    Jupyter Notebook 3 MIT 0 0 0 Updated Jan 3, 2024
  • Prime-del Public
    shendurelab/Prime-del’s past year of commit activity
    Python 3 MIT 0 0 0 Updated Sep 26, 2023
  • ptolemy-ui Public
    shendurelab/ptolemy-ui’s past year of commit activity
    Vue 0 1 0 0 Updated Jul 20, 2022
  • ptolemy-api Public
    shendurelab/ptolemy-api’s past year of commit activity
    Python 0 1 0 0 Updated Jul 20, 2022

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