Repositories list

• SFtool

  Public
  Secondary Findings tool

  Python

  •0•1•2•0•Updated Jan 28, 2026Jan 28, 2026

• SMAca

  Public
  SMN1 copy-number and sequence variant analysis from next generation sequencing data

  Python

  •

  GNU General Public License v3.0

  •7•23•1•0•Updated Nov 28, 2025Nov 28, 2025

• bps_to_omop

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 19, 2025Nov 19, 2025

• metabopathia

  Public
  Jupyter Notebook

  •

  European Union Public License 1.2

  •1•0•0•0•Updated Sep 21, 2025Sep 21, 2025

• pmc_maqc-ml

  Public
  Python

  •0•0•1•0•Updated Aug 18, 2025Aug 18, 2025

• SNO_proteomics

  Public
  HTML

  •

  MIT License

  •0•0•0•0•Updated Aug 4, 2025Aug 4, 2025

• SpPGS

  Public
  Nextflow

  •

  MIT License

  •1•0•0•0•Updated Jun 13, 2025Jun 13, 2025

• hipathia_web

  Public
  Web interface to HiPathia

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•5•Updated May 25, 2025May 25, 2025

• predoc

  Public
  Machine learning model using EHR data from Andalusia (15M individuals) for early prediction of high-grade serous ovarian cancer (HGSOC) risk.

  Shell

  •

  MIT License

  •0•0•0•0•Updated May 23, 2025May 23, 2025

• PharmGKB2MGI

  Public
  R

  •1•0•0•0•Updated Apr 6, 2025Apr 6, 2025

• signor2Hipathia

  Public
  In this project, we aim to integrate pathways from the Signor database to make them compatible with the Hipathia method. Here is an overview of the project and …

  HTML

  •

  European Union Public License 1.2

  •1•0•0•0•Updated Mar 25, 2025Mar 25, 2025

• Metabolica

  Public
  R

  •0•0•0•0•Updated Jan 28, 2025Jan 28, 2025

• beacon2-app-virus

  Public
  Implementation of a Beacon v2 customized for SARS-COV-2

  JavaScript

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 12, 2024Dec 12, 2024

• biomedical-integrator-impactData

  Public
  Source code of the Biomedical Data integration demo developed in IMPaCT-Data

  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 12, 2024Dec 12, 2024

• CSVS

  Public
  Population Variant Server

  JavaScript

  •

  GNU General Public License v2.0

  •3•5•1•4•Updated Nov 27, 2024Nov 27, 2024

• stevia-elements

  Public
  HTML

  •

  GNU General Public License v3.0

  •2•0•0•0•Updated Jul 4, 2024Jul 4, 2024

• TCGA_SARC

  Public
  R

  •0•0•0•0•Updated Jan 24, 2024Jan 24, 2024

• ivae_scorer

  Public
  Jupyter Notebook

  •1•1•0•0•Updated Dec 30, 2023Dec 30, 2023

• drexml-retinitis

  Public
  R

  •

  MIT License

  •1•0•0•0•Updated Dec 27, 2023Dec 27, 2023

• sigprimednet

  Public
  Jupyter Notebook

  •1•1•0•1•Updated Sep 23, 2023Sep 23, 2023

• signalization_prior_knowledge_based_nn

  Public
  Jupyter Notebook

  •2•2•0•0•Updated Sep 23, 2023Sep 23, 2023

• metabolizer

  Public
  Web tool to analyze transcriptomic (and mutational) data in the context of metabolic pathways

  HTML

  •0•2•1•0•Updated Jun 12, 2023Jun 12, 2023

• SPACNACS

  Public
  JavaScript

  •0•0•0•0•Updated May 24, 2023May 24, 2023

• ngscat2

  Public
  Improved version of Next Generation Sequencing data Capture Assessment Tool (ngsCAT)

  Python

  •3•0•1•3•Updated Dec 8, 2022Dec 8, 2022

• impuSARS

  Public
  Software tool for the imputation of whole-genome SARS-CoV-2 sequences.

  Shell

  •

  MIT License

  •0•4•2•0•Updated Nov 28, 2022Nov 28, 2022

• MIGNON

  Public
  Mechanistic integrative analysis of RNA-Seq data

  WDL

  •

  MIT License

  •6•7•1•0•Updated Nov 6, 2022Nov 6, 2022

• sptest

  Public
  HiveQL

  •1•0•0•0•Updated Oct 7, 2022Oct 7, 2022

• hipathia

  Public
  Signaling pathway model

  R

  •2•7•0•0•Updated Jul 27, 2022Jul 27, 2022

• metagenomic-crc

  Public
  HTML

  •

  MIT License

  •3•4•0•0•Updated Apr 20, 2022Apr 20, 2022

• mmp-cancer

  Public
  Backend services for MMP-Cancer

  Java

  •0•0•0•0•Updated Mar 21, 2022Mar 21, 2022