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@tatonetti-lab Tatonetti Lab

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    52 repositories

    • tatonetti-lab.github.io

      Public
      Tatonetti Lab Website
      HTML
      •0•0•0•0•Updated Jul 21, 2026Jul 21, 2026

    • pingkit

      Public
      Python
      •
      MIT License
      •1•3•0•0•Updated Jul 21, 2026Jul 21, 2026

    • Mapping-LOY

      Public
      Analysis pipeline for mapping and quantifying Y chromosome read counts across WGS, WES, and RNA-seq data to study loss of the Y chromosome (LOY) in cancer and o…
      R
      •0•0•0•0•Updated Jul 20, 2026Jul 20, 2026

    • BioAdmitBench

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jun 5, 2026Jun 5, 2026

    • disrupt

      Public
      SU2C Disrupt IT Team Github Repository
      Python
      •0•2•2•0•Updated May 6, 2026May 6, 2026

    • onsides

      Public
      A resource of adverse drug effects extracted from FDA structured product labels
      Python
      •
      MIT License
      •10•104•8•0•Updated Apr 28, 2026Apr 28, 2026

    • plaibox

      Public
      CLI tool that manages the lifecycle of vibe-coded projects. Organizes work into sandbox, projects, and archive spaces with lightweight YAML metadata. Auto-tra…
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • offsides

      Public
      A resource for drug side effects associations not listed on the official labels
      Jupyter Notebook
      •
      MIT License
      •1•1•1•0•Updated Apr 9, 2026Apr 9, 2026

    • trustrun

      Public
      Network trust verification for agent-produced code.
      Python
      •
      MIT License
      •0•7•0•0•Updated Feb 14, 2026Feb 14, 2026

    • nlomop

      Public
      Natural Language Interface for OMOP CDM
      HTML
      •
      Other
      •0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • claudetext

      Public
      TypeScript
      •
      Other
      •0•0•0•0•Updated Feb 9, 2026Feb 9, 2026

    • Accent-Project

      Public
      Assessing the effect of accent in transcription accuracy of ASR models.
      Python
      •1•0•0•0•Updated Dec 16, 2025Dec 16, 2025

    • onsides-web

      Public
      OnSIDES Website
      JavaScript
      •
      MIT License
      •0•1•4•1•Updated Oct 20, 2025Oct 20, 2025

    • PedXBench

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 25, 2025Sep 25, 2025

    • pressure_pad

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Aug 1, 2025Aug 1, 2025

    • singlecell-nephrotoxicity

      Public
      Repo for reproducing sc nephrotoxicity analysis
      Python
      •0•1•0•0•Updated Jun 23, 2025Jun 23, 2025

    • onsides-task1

      Public
      Evaluation of GPT methods for ADE term identification
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated May 28, 2025May 28, 2025

    • webgwas-backend

      Public
      WebGWAS: Instant, free online genome-wide association studies. Server backend code.
      gwasgenetics
      gwasgenetics
      Rust
      •2•2•0•0•Updated Nov 13, 2024Nov 13, 2024

    • dconvae

      Public
      Deconfounding Variational Autoencoder for Drug Safety Pharmacovigilance Analysis
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • biogrok

      Public
      Exploring grokking in biologically relevant algorithms
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

    • maxgcp

      Public
      Maximum genetic component phenotyping. An advanced method for defining observational phenotypes using genetic information.
      Python
      •
      MIT License
      •1•2•0•0•Updated Oct 21, 2024Oct 21, 2024

    • nsides-release

      Public
      Analysis notebooks and database interaction scripts for the nsides project
      Jupyter Notebook
      •9•22•3•0•Updated Sep 13, 2024Sep 13, 2024

    • chappy

      Public
      Python
      •0•0•6•0•Updated Sep 6, 2024Sep 6, 2024

    • indirect-gwas

      Public
      Fast GWAS on linear combinations of traits using only summary statistics
      gwasgeneticsmulti-trait-analysis
      gwasgeneticsmulti-trait-analysis
      Rust
      •
      MIT License
      •0•6•0•0•Updated Aug 29, 2024Aug 29, 2024

    • tnm-stage-classifier

      Public
      Extract TNM cancer staging from pathology notes.
      Jupyter Notebook
      •
      MIT License
      •9•14•0•0•Updated Aug 2, 2024Aug 2, 2024

    • causal-drug-ades

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Jul 24, 2024Jul 24, 2024

    • maxgcp-analysis

      Public
      Boosting the genetic signal in phenotype definitions
      Jupyter Notebook
      •
      MIT License
      •2•1•0•0•Updated Jul 23, 2024Jul 23, 2024

    • tcga-path-reports

      Public
      TCGA Pathology Reports in Machine Readable Text
      Python
      •
      MIT License
      •13•65•1•0•Updated May 30, 2024May 30, 2024

    • indirect-gwas-analysis

      Public
      Accerating pan-biobank GWAS using phenotype projections
      gwasgeneticsphenotypes
      gwasgeneticsphenotypes
      Jupyter Notebook
      •
      MIT License
      •0•2•0•0•Updated Apr 25, 2024Apr 25, 2024

    • sex_risks

      Public
      Investigating drugs with sex specific risks of adverse drug reactions
      Jupyter Notebook
      •
      MIT License
      •4•8•0•0•Updated Mar 29, 2024Mar 29, 2024
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