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@EngreitzLab

Engreitz Lab

Engreitz Lab @ Stanford University

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  1. ABC-GWAS-Paper ABC-GWAS-Paper Public

    Code to reproduce analyses in Nasser, Bergman, Fulco, Guckelberger, Doughty et al Nature 2021

    PostScript 18 2

  2. CRISPRDesigner CRISPRDesigner Public

    Design and selection of gRNAs for pooled CRISPRi tiling screens

    Python 4 1

Repositories

Showing 10 of 45 repositories
  • WattEG Public

    “Power and sample-size analysis for detecting element–gene links (SCEPTRE-based); estimates per-pair power and expected discoveries at a target FDR.”

    EngreitzLab/WattEG's past year of commit activity
    R 0 MIT 1 0 0 Updated Sep 11, 2026
  • CRISPR_comparison Public

    Snakemake workflow for comparing E-G links to experimental data

    EngreitzLab/CRISPR_comparison's past year of commit activity
    HTML 24 MIT 4 1 1 Updated Sep 10, 2026
  • telohaec-genomewide-perturb-seq-analysis Public

    Reproducible TeloHAEC genome-wide Perturb-seq processing, cNMF, and differential program analysis

    EngreitzLab/telohaec-genomewide-perturb-seq-analysis's past year of commit activity
    Python 0 0 0 0 Updated Sep 6, 2026
  • igvf_tf_chrombpnet Public

    ChromBPNet pipeline for the IGVF TF collaboration (steps 00-04.0)

    EngreitzLab/igvf_tf_chrombpnet's past year of commit activity
    Python 0 1 0 0 Updated Sep 2, 2026
  • scE2G Public

    Pipeline to run scE2G

    EngreitzLab/scE2G's past year of commit activity
    Python 62 MIT 7 4 3 Updated Sep 1, 2026
  • hipsc-ec-crispri-screen-analysis Public

    Analysis code for genome-wide and validation CRISPRi screens of hiPSC-to-endothelial differentiation

    EngreitzLab/hipsc-ec-crispri-screen-analysis's past year of commit activity
    R 0 0 0 0 Updated Sep 1, 2026
  • igvf-grna-validation Public
    EngreitzLab/igvf-grna-validation's past year of commit activity
    Python 0 2 0 0 Updated Aug 26, 2026
  • generate-principal-pseudobulks Public

    Select QC thresholds based on per-cell quality reports and QC filter + merge ATAC fragment files & RNA count matrices

    EngreitzLab/generate-principal-pseudobulks's past year of commit activity
    Python 0 MIT 0 0 0 Updated Aug 24, 2026
  • DC_TAP_Paper Public

    Workflow for analyzing DC TAP datasets

    EngreitzLab/DC_TAP_Paper's past year of commit activity
    HTML 0 MIT 2 0 1 Updated Aug 20, 2026
  • broad-nnfc-cmo-multiome Public

    Reproducible analysis code for endothelial differentiation 10x Multiome CMO experiments across timepoints

    EngreitzLab/broad-nnfc-cmo-multiome's past year of commit activity
    Python 0 MIT 0 0 0 Updated Aug 20, 2026
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