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    20 repositories

    • cardiogenic_shock_mofa

      Public
      This repository contains the data, code, and figures for the cardiogenic shock manuscript linked here:
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • plaque-atlas-mapping

      Public
      Python
      •
      Other
      •0•3•0•0•Updated Jan 29, 2026Jan 29, 2026

    • reproducibility-plaque-atlas

      Public
      Jupyter Notebook
      •
      Other
      •0•5•0•0•Updated Jan 29, 2026Jan 29, 2026

    • heiniglab.github.io

      Public
      Heinig lab website
      0•0•0•0•Updated Jan 28, 2026Jan 28, 2026

    • investigating-foundation-models-3utr

      Public
      data processing codes for "Investigating the performance of foundation models on human 3’UTR sequences"
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Oct 15, 2025Oct 15, 2025

    • scPower-Cell-Atlas

      Public
      R
      •0•0•15•0•Updated Jan 13, 2025Jan 13, 2025

    • scPower

      Public
      Experimental design framework for scRNAseq population studies (eQTL and DE)
      single-celldifferential-expressioneqtl
      single-celldifferential-expressioneqtlpower-analysis
      R
      •5•47•4•0•Updated Jan 8, 2025Jan 8, 2025

    • stride

      Public
      STRIDE protein secondary structure assignment
      C
      •2•1•0•0•Updated Jul 30, 2024Jul 30, 2024

    • mofa_workflow

      Public
      Workflow for processing and analyzing multi-omics data with MOFA
      Jupyter Notebook
      •1•2•0•0•Updated Jun 27, 2024Jun 27, 2024

    • stemi_mofa

      Public
      Multiomics factor analysis of STEMI patients
      Jupyter Notebook
      •3•8•0•0•Updated Mar 4, 2024Mar 4, 2024

    • gaertner_megakaryocytes

      Public
      HTML
      •
      Apache License 2.0
      •0•0•0•0•Updated Dec 1, 2023Dec 1, 2023

    • DCM_heart_cell_atlas

      Public
      Single cell atlas of the hearts of patients with dilated cardiomyopathy
      Jupyter Notebook
      •3•11•0•0•Updated Sep 7, 2023Sep 7, 2023

    • GR-mediated_gene_repression

      Public
      Code for the manuscript "Machine learning reveals STAT motifs as predictors for GR-mediated gene repression"
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jan 24, 2023Jan 24, 2023

    • multiomics-network-inference

      Public
      Code used for the manuscript 'Network reconstruction for trans acting genetic loci using multi-omics data and prior information' by Hawe et al., 2022 in Genome …
      R
      •4•2•0•0•Updated Oct 5, 2022Oct 5, 2022

    • DeepSom

      Public
      A CNN - based pipeline for calling somatic SNP and INDEL variants without a matched normal
      Python
      •6•11•0•0•Updated Sep 7, 2022Sep 7, 2022

    • POLII_pausing

      Public
      Code for "Predictive model of transcriptional elongation control identifies trans regulatory factors from chromatin signatures"
      R
      •0•3•0•0•Updated Feb 18, 2022Feb 18, 2022

    • hawe2021_meQTL_analyses

      Public
      Code for the meQTL analyses presented in Hawe et al. 2021 Nature Genetics
      R
      •6•14•0•0•Updated Jan 14, 2022Jan 14, 2022

    • eQTLpipeline

      Public
      Toolset to perform eQTL analysis on HPC systems
      R
      •9•0•0•0•Updated Nov 2, 2021Nov 2, 2021

    • symatrial

      Public
      Analysis code for the symatrial project
      HTML
      •
      GNU General Public License v3.0
      •4•7•0•0•Updated Jul 13, 2021Jul 13, 2021

    • QTLnetwork

      Public
      Prioritize candidate genes by random walks on molecular networks
      R
      •0•2•0•0•Updated Jun 29, 2021Jun 29, 2021
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