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    13 repositories

    • co-eQTL-meta-analysis

      Public
      Collection of files and scripts for co-eQTL project using meta-analysis approach with the single-cell eQTLGen consortium
      Jupyter Notebook
      •0•1•0•0•Updated Jan 14, 2026Jan 14, 2026

    • WG1-pipeline-QC

      Public
      Part of the sc-eQTLgen consortium pipeline. Step 1, where the QC is done.
      Python
      •6•8•9•2•Updated Dec 8, 2025Dec 8, 2025

    • sc_wma

      Public
      Repository for Weighted Meta Analysis paper by Maryna Korshevniuk
      R
      •0•3•0•0•Updated Jul 28, 2025Jul 28, 2025

    • WG3-pipeline-QTL

      Public
      Part of the sc-eQTLgen consortium pipeline. Step 3, where the QTL mapping is done.
      R
      •3•3•0•0•Updated Jun 4, 2025Jun 4, 2025

    • WG2-pipeline-classification

      Public
      Part of the sc-eQTLgen consortium pipeline. Step 2, where the cell-type classification is done.
      R
      •1•6•1•0•Updated Dec 11, 2024Dec 11, 2024

    • WG0-pipeline-preprocessing

      Public
      Future addition to the sc-eQTLgen consortium pipeline. Step 0, where alignment and ambient RNA correction is done.
      0•0•0•0•Updated Dec 11, 2024Dec 11, 2024

    • WG-pipeline-docs

      Public
      Documentation website for the different workgroup pipelines
      0•1•0•0•Updated Oct 15, 2024Oct 15, 2024

    • limix_qtl

      Public
      Python
      •
      Apache License 2.0
      •13•1•0•0•Updated Jun 26, 2024Jun 26, 2024

    • li-2023

      Public
      Building Gene Regulatory Networks in scRNA-seq data, https://doi.org/10.1186/s13059-023-02897-x
      Jupyter Notebook
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•0•Updated Jan 11, 2024Jan 11, 2024

    • wg3-sc_pseudobulk_DEA

      Public
      sc-eQTLGen Consortium WG3: single cell- and pseudobulk-DEA
      R
      •1•1•0•0•Updated Dec 18, 2023Dec 18, 2023

    • wg3_cell_qc_filtering

      Public
      Cell QC filtering WG3
      R
      •1•0•0•0•Updated Dec 13, 2023Dec 13, 2023

    • souporcell

      Public
      Clustering scRNAseq by genotypes
      Python
      •
      MIT License
      •53•0•0•0•Updated Nov 16, 2023Nov 16, 2023

    • co-expressionQTLs

      Public
      Building Gene Regulatory Networks in scRNA-seq data, replaced by https://github.com/sc-eQTLgen-consortium/li-2023
      Jupyter Notebook
      •
      BSD 2-Clause "Simplified" License
      •1•4•0•0•Updated Feb 6, 2023Feb 6, 2023
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