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@daisybio Data Science in Systems Biology

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    99 repositories

    • PRONE.Shiny

      Public
      Code of the R Shiny App of the PRONE R Package.
      shinyappsnormalizationproteomics-data-analysis
      shinyappsnormalizationproteomics-data-analysis
      R
      •
      GNU General Public License v3.0
      •1•2•3•0•Updated Apr 22, 2026Apr 22, 2026

    • drevalpy

      Public
      DrEval is a toolkit that ensures drug response prediction evaluations are statistically sound, biologically meaningful, and reproducible.
      machine-learningbioinformaticsdrug-response-prediction
      machine-learningbioinformaticsdrug-response-prediction
      Python
      •
      MIT License
      •8•34•15•10•Updated Apr 20, 2026Apr 20, 2026

    • CADDIE-frontend

      Public
      TypeScript
      •0•1•0•0•Updated Apr 2, 2026Apr 2, 2026

    • CADDIE-backend

      Public
      Python
      •1•1•0•0•Updated Apr 2, 2026Apr 2, 2026

    • SPONGE-web-frontend

      Public
      TypeScript
      •0•1•0•12•Updated Mar 27, 2026Mar 27, 2026

    • IHEC-AS

      Public
      R
      •
      GNU General Public License v3.0
      •2•1•0•0•Updated Mar 27, 2026Mar 27, 2026

    • SPONGE-web-backend

      Public
      Python
      •
      GNU General Public License v3.0
      •0•1•0•6•Updated Mar 25, 2026Mar 25, 2026

    • PRONE

      Public
      R Package for preprocessing, normalizing, and analyzing proteomics data
      evaluationdata-analysisproteomics
      evaluationdata-analysisproteomicsnormalization
      R
      •
      GNU General Public License v3.0
      •3•8•1•0•Updated Mar 12, 2026Mar 12, 2026

    • preprocess_drp_data

      Public
      This project contains all steps necessary to get from the original data repositories of CCLE/GDSC/… to usable input files.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•3•2•0•Updated Mar 4, 2026Mar 4, 2026

    • circRNA_benchmarking

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • RMR_prediction

      Public
      HTML
      •0•0•0•0•Updated Jan 8, 2026Jan 8, 2026

    • Tangram_Refinement_Strategies

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•8•1•0•Updated Dec 18, 2025Dec 18, 2025

    • MOPITAS_Autumn_School

      Public
      Resources for the MOPITAS autumn school 2025
      Jupyter Notebook
      •0•1•0•0•Updated Dec 11, 2025Dec 11, 2025

    • DiReG

      Public
      R
      •0•0•0•0•Updated Dec 7, 2025Dec 7, 2025

    • SPONGE

      Public
      Sparse Partial correlation ON Gene Expression - an R package for fast and robust ceRNA network inference
      R
      •9•14•5•2•Updated Nov 13, 2025Nov 13, 2025

    • platlas

      Public
      A platelet atlas
      R
      •
      GNU General Public License v3.0
      •0•1•27•0•Updated Nov 10, 2025Nov 10, 2025

    • FOXP3-FLAG-analysis

      Public
      0•1•0•0•Updated Oct 7, 2025Oct 7, 2025

    • cyanus

      Public
      A Systematic Comparison of Differential Analysis Methods for CyTOF Data & CYANUS App
      R
      •
      GNU General Public License v3.0
      •2•5•8•0•Updated Oct 7, 2025Oct 7, 2025

    • nfcore-tfactivity-report

      Public
      Final report for the nf-core/tfactivity
      Astro
      •0•0•0•0•Updated Sep 30, 2025Sep 30, 2025

    • DIGGER

      Public
      Exploring Isoform-specific interactions
      visualizationdjango-applicationwebtool
      visualizationdjango-applicationwebtoolprotein-protein-interactionbioinformatics-tool
      Python
      •
      GNU General Public License v3.0
      •2•13•3•2•Updated Sep 16, 2025Sep 16, 2025

    • RPs_MPs

      Public
      HTML
      •0•2•0•0•Updated Aug 13, 2025Aug 13, 2025

    • drugstone_backend

      Public
      This is the backend service repository that makes Drugst.One work. Drugst.One is a plug-and-play solution to make your biomedical (web-)tool drug repurposing re…
      Python
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Jul 17, 2025Jul 17, 2025

    • NEASE

      Public
      A network-based approach for exon set enrichment
      rna-seqstatisticsalternative-splicing
      rna-seqstatisticsalternative-splicingnetwork-analysistranscriptomicsprotein-protein-interactionbioinformatics-tool
      Python
      •
      GNU General Public License v3.0
      •2•15•0•0•Updated Jul 16, 2025Jul 16, 2025

    • Dimmer

      Public
      Java
      •
      GNU General Public License v3.0
      •1•1•0•3•Updated Jul 12, 2025Jul 12, 2025

    • drugstone_plugin

      Public
      Drugst.One is a plug-and-play solution to make your biomedical (web-)tool drug repurposing ready. With just three lines of code the plugin can be integrated int…
      HTML
      •
      GNU General Public License v3.0
      •3•0•0•0•Updated Jul 9, 2025Jul 9, 2025

    • PRONE.Evaluation

      Public
      R
      •1•2•0•1•Updated May 26, 2025May 26, 2025

    • spongeWebPy

      Public
      Python
      •0•1•0•3•Updated May 15, 2025May 15, 2025

    • namco

      Public
      R
      •
      GNU General Public License v3.0
      •3•11•25•0•Updated Apr 17, 2025Apr 17, 2025

    • PPI_prediction_study

      Public
      Python
      •
      MIT License
      •1•11•1•0•Updated Mar 21, 2025Mar 21, 2025

    • teff-treg-satb1-analysis

      Public
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Mar 20, 2025Mar 20, 2025
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