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    34 repositories

    • MarkerRepo

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 23, 2026Apr 23, 2026

    • FRED_whitelists

      Public
      Python
      •0•0•0•0•Updated Apr 22, 2026Apr 22, 2026

    • SC-Framework

      Public
      A framework for single cell analysis
      HTML
      •
      MIT License
      •3•11•0•0•Updated Apr 22, 2026Apr 22, 2026

    • PILOT_scframework

      Public
      Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)
      Python
      •
      MIT License
      •8•1•0•0•Updated Apr 21, 2026Apr 21, 2026

    • FRED

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 21, 2026Apr 21, 2026

    • Code_Schultheis_et_al_2025_SC-Framework

      Public
      Contains the analysis results of the SC-Framework manuscript
      Jupyter Notebook
      •0•0•0•0•Updated Apr 17, 2026Apr 17, 2026

    • Code_Tarasco_et_al_2025_danioheart

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Apr 13, 2026Apr 13, 2026

    • PEAKQC

      Public
      PEAK-QC: Periodicity Evaluation in ATAC-seq as Key aspect in Quality Control
      Jupyter Notebook
      •
      MIT License
      •0•2•0•0•Updated Apr 7, 2026Apr 7, 2026

    • TOBIAS

      Public
      Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
      bioinformaticsatac-seqfootprinting
      bioinformaticsatac-seqfootprinting
      Python
      •
      MIT License
      •45•246•6•1•Updated Mar 23, 2026Mar 23, 2026

    • UROPA_dev

      Public
      Universal RObust Peak Annotator
      Python
      •
      MIT License
      •7•0•0•0•Updated Mar 5, 2026Mar 5, 2026

    • FRED_standalone

      Public
      HTML
      •0•0•0•0•Updated Feb 26, 2026Feb 26, 2026

    • scanpro

      Public
      A modular tool for proportion analysis in single-cell sequencing data
      Jupyter Notebook
      •
      MIT License
      •3•25•1•0•Updated Feb 26, 2026Feb 26, 2026

    • TOBIAS_snakemake

      Public
      Snakemake pipeline for running TOBIAS analysis
      Python
      •
      MIT License
      •5•8•2•0•Updated Dec 16, 2025Dec 16, 2025

    • pptreport

      Public
      A utility for automating creation of powerpoint presentations
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 19, 2025Nov 19, 2025

    • TF-COMB

      Public
      Transcription Factor Co-Occurrence using Market Basket analysis
      Python
      •
      MIT License
      •2•17•15•1•Updated Jul 7, 2025Jul 7, 2025

    • Code_Jafari_et_al_2024_cteph_rv_reverse_remodeling

      Public
      R
      •
      MIT License
      •0•1•0•0•Updated Mar 5, 2025Mar 5, 2025

    • Code_Jin_et_al_2024_Atherosclerosis_PKN1

      Public
      R
      •
      MIT License
      •0•0•0•0•Updated Nov 18, 2024Nov 18, 2024

    • denis

      Public
      framework for de novo motif generation on ATAC-seq
      Python
      •
      MIT License
      •2•4•2•0•Updated Nov 12, 2024Nov 12, 2024

    • Code_Li_et_al_2024_sEH_monocytes

      Public
      R
      •
      MIT License
      •0•0•0•0•Updated Aug 20, 2024Aug 20, 2024

    • biodaten23-24-scATAC-clustering

      Public
      Jupyter Notebook
      •2•0•0•0•Updated Feb 28, 2024Feb 28, 2024

    • UROPA

      Public
      Universal RObust Peak Annotator
      Python
      •
      MIT License
      •7•16•0•0•Updated Dec 19, 2023Dec 19, 2023

    • i2dash

      Public
      i2dash: interactive and iterative dashboards.
      i2dash
      i2dash
      R
      •
      Other
      •4•10•2•1•Updated Sep 5, 2023Sep 5, 2023

    • Li_et_al_2023_heart_regeneration

      Public
      Inhibition of fatty acid oxidation stimulates KDM5-mediated H3K4me3 demethylation and enables heart regeneration in adult mice
      R
      •
      MIT License
      •0•1•0•0•Updated Jun 9, 2023Jun 9, 2023

    • Datenanalyse_2022_23

      Public
      This repository contains a pipeline for analyzing data from scATAC-seq.
      pipelineanalysisscatac-seq
      pipelineanalysisscatac-seq
      Jupyter Notebook
      •0•0•0•0•Updated Mar 1, 2023Mar 1, 2023

    • Wu_et_al_2022_Spurious_transcription

      Public
      Shell
      •
      MIT License
      •0•1•0•0•Updated Oct 25, 2022Oct 25, 2022

    • Datenanalyse-2021

      Public
      Jupyter Notebook
      •0•2•1•0•Updated Mar 29, 2022Mar 29, 2022

    • multicrispr

      Public
      HTML
      •0•0•0•0•Updated Dec 23, 2021Dec 23, 2021

    • wilson

      Public
      WIlsON: Webbased Interactive Omics visualizatioN. This is a mirror of
      R
      •
      Other
      •1•2•0•0•Updated Nov 15, 2021Nov 15, 2021

    • jlu-bda-2020

      Public
      Code repository for the JLU practical in Biodatenanalyse in winter 2020/2021
      Python
      •
      MIT License
      •1•0•2•0•Updated Apr 16, 2021Apr 16, 2021

    • i2dash.scrnaseq

      Public
      Components for an i2dashboard from i2dash, related to data from single-cell RNA-sequencing
      i2dash
      i2dash
      R
      •
      Other
      •0•1•0•0•Updated Nov 6, 2020Nov 6, 2020
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