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@pfenninglab

Pfenning Lab

Genetic and Epigenetic data processing code from the Pfenning Lab at Carnegie Mellon University

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  1. halLiftover-postprocessing halLiftover-postprocessing Public

    Python 24 5

  2. TACIT TACIT Public

    OCR-Phenotype Association from Tissue-Aware Conservation Inference Toolkit

    Shell 18 3

  3. OCROrthologPrediction OCROrthologPrediction Public

    This repository contains models and code for predicting open chromatin status of OCR orthologs.

    Shell 3 1

  4. Logan_Striatum_snRNA-seq Logan_Striatum_snRNA-seq Public

    Single cell transcriptomics analyses in the striatum of patients with OUD

    HTML 3 1

  5. addiction_gwas_enrichment addiction_gwas_enrichment Public

    Scripts and data generated for the addiction GWAS enrichment and subsequent analyses.

    HTML 2 1

  6. ml-prototypes ml-prototypes Public

    Jupyter Notebook 1

Repositories

Showing 10 of 29 repositories
  • cnn_pipeline Public

    Train CNN models on DNA sequences.

    pfenninglab/cnn_pipeline’s past year of commit activity
    Python 1 1 11 1 Updated Feb 9, 2026
  • Transcriptional-Brain-Aging-Clock Public
    pfenninglab/Transcriptional-Brain-Aging-Clock’s past year of commit activity
    R 0 0 0 0 Updated Jan 20, 2026
  • halLiftover-postprocessing Public
    pfenninglab/halLiftover-postprocessing’s past year of commit activity
    Python 24 MIT 5 4 0 Updated Dec 3, 2025
  • TACIT Public

    OCR-Phenotype Association from Tissue-Aware Conservation Inference Toolkit

    pfenninglab/TACIT’s past year of commit activity
    Shell 18 MIT 3 1 0 Updated Dec 3, 2025
  • ad-blood-h3k27ac Public
    pfenninglab/ad-blood-h3k27ac’s past year of commit activity
    Python 0 0 0 0 Updated Jul 25, 2025
  • context_ad_mpra Public

    context_ad_mpra

    pfenninglab/context_ad_mpra’s past year of commit activity
    Python 0 1 0 0 Updated Jul 18, 2025
  • sysMPRA Public

    This repository is for sysMPRA code.

    pfenninglab/sysMPRA’s past year of commit activity
    Python 0 0 0 0 Updated Apr 28, 2025
  • Macaque_Multiome_DLPFC Public

    Methods for analyzing monkey single cell multiomics datasets in the prefrontal cortex.

    pfenninglab/Macaque_Multiome_DLPFC’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Apr 27, 2025
  • Logan_Striatum_snRNA-seq Public

    Single cell transcriptomics analyses in the striatum of patients with OUD

    pfenninglab/Logan_Striatum_snRNA-seq’s past year of commit activity
    HTML 3 MIT 1 0 0 Updated Apr 15, 2025
  • ad_variants Public
    pfenninglab/ad_variants’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Mar 28, 2025
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