Repositories list

• projects-erdera

  Public
  MOLGENIS-RD3 implementation for ERDERA

  Python

  •0•0•0•1•Updated Oct 9, 2025Oct 9, 2025

• vip

  Public
  Variant Interpretation Pipeline

  pipelinegeneticsvariant-interpretation

  Shell

  •

  GNU Lesser General Public License v3.0

  •8•43•6•10•Updated Oct 9, 2025Oct 9, 2025

• nf_ngs_dna

  Public
  Shell

  •1•0•0•0•Updated Oct 9, 2025Oct 9, 2025

• molgenis-service-armadillo

  Public
  Armadillo; a DataSHIELD implementation, part of the MOLGENIS suite

  hacktoberfest

  Java

  •

  GNU Lesser General Public License v3.0

  •10•8•72•15•Updated Oct 9, 2025Oct 9, 2025

• molgenis-emx2

  Public
  MOLGENIS EMX2, the latest version of the MOLGENIS data platform.

  Vue

  •

  GNU Lesser General Public License v3.0

  •21•22•221•77•Updated Oct 9, 2025Oct 9, 2025

• vip-utils

  Public
  Shared utils and resources for VIP modules and tools

  Java

  •

  GNU Lesser General Public License v3.0

  •0•0•0•1•Updated Oct 9, 2025Oct 9, 2025

• vip-report-template

  Public
  Report template for Variant Call Format (VCF) Report generator

  TypeScript

  •

  GNU Lesser General Public License v3.0

  •0•4•1•5•Updated Oct 9, 2025Oct 9, 2025

• vip-report-api

  Public
  Report API for Variant Call Format (VCF) Report templates

  TypeScript

  •

  GNU Lesser General Public License v3.0

  •0•3•0•2•Updated Oct 9, 2025Oct 9, 2025

• vip-annotate

  Public
  Variant Call Format (VCF) file annotation

  0•0•0•0•Updated Oct 8, 2025Oct 8, 2025

• molgenis.org

  Public
  Source code of the (new) website for MOLGENIS

  CSS

  •

  GNU Lesser General Public License v3.0

  •22•1•0•1•Updated Oct 7, 2025Oct 7, 2025

• vip-report

  Public
  Report generator for Variant Call Format (VCF) files

  HTML

  •

  GNU Lesser General Public License v3.0

  •1•5•0•3•Updated Oct 7, 2025Oct 7, 2025

• projects-solve-rd

  Public
  All things related to maintaining the RD3 database

  Python

  •

  GNU General Public License v3.0

  •3•1•0•2•Updated Oct 7, 2025Oct 7, 2025

• molgenis-tools-commander

  Public
  A command line interface for MOLGENIS

  hacktoberfest

  CSS

  •

  GNU Lesser General Public License v3.0

  •8•8•16•13•Updated Oct 6, 2025Oct 6, 2025

• NGS_Automated

  Public
  Shell

  •

  GNU Lesser General Public License v3.0

  •8•4•13•0•Updated Oct 3, 2025Oct 3, 2025

• PGx-pipeline

  Public
  Farmacogenetics pipeline

  Shell

  •

  GNU Lesser General Public License v3.0

  •4•1•0•0•Updated Oct 3, 2025Oct 3, 2025

• take-it-easyconfigs

  Public
  Perl

  •8•0•0•9•Updated Sep 30, 2025Sep 30, 2025

• vip-report-vcf

  Public
  TypeScript VCF library with support for both reading and writing

  TypeScript

  •

  GNU Lesser General Public License v3.0

  •0•2•0•1•Updated Sep 26, 2025Sep 26, 2025

• cluster-utils

  Public
  Collection of utilities / helper scripts to make life easier on our HPC clusters.

  Perl

  •

  GNU Lesser General Public License v3.0

  •9•22•0•0•Updated Sep 25, 2025Sep 25, 2025

• NGS_RNA

  Public
  Shell

  •

  GNU Lesser General Public License v3.0

  •9•5•0•1•Updated Sep 24, 2025Sep 24, 2025

• molgenis-r-datashield

  Public
  Armadillo implementation of DSI to be DataSHIELD ready, part of the MOLGENIS suite

  hacktoberfest

  R

  •4•0•10•0•Updated Sep 16, 2025Sep 16, 2025

• ds-admin-support

  Public
  Consented admin update tool for DataSHIELD servers (Armadillo/Opal)

  Vue

  •0•0•0•1•Updated Sep 11, 2025Sep 11, 2025

• vite-plugin-inline

  Public
  Vite plugin that embeds .js and .css as base85 data

  TypeScript

  •

  GNU Lesser General Public License v3.0

  •0•11•0•1•Updated Sep 9, 2025Sep 9, 2025

• projects-rd-recon4imd

  Public
  Python

  •

  GNU General Public License v3.0

  •2•0•0•2•Updated Sep 1, 2025Sep 1, 2025

• ChronQC

  Public
  Manuscript describing ChronQC is now available online in Bioinformatics

  HTML

  •

  MIT License

  •10•0•0•0•Updated Aug 29, 2025Aug 29, 2025

• vkgl-history-analytics

  Public
  A tool that parses VKGL variant classification data from public releases, connects variants across time and provides insights by visualizing different aspects.

  dna-sequencingmolecular-diagnosticspathogenicity-classification

  Java

  •

  GNU Lesser General Public License v3.0

  •1•0•0•1•Updated Aug 29, 2025Aug 29, 2025

• NGS_DNA

  Public
  NGS DNA best practice pipeline for Illumina sequencing - alignment, variant calling, annotation and QC

  Shell

  •

  GNU Lesser General Public License v3.0

  •17•18•19•0•Updated Aug 22, 2025Aug 22, 2025

• capice-resources

  Public
  Repository for resource files for CAPICE and updating CAPICE model

  Python

  •

  GNU Lesser General Public License v3.0

  •0•1•8•1•Updated Aug 14, 2025Aug 14, 2025

• ReigenMT

  Public
  R implementation of eigenMT algorithm for multiple testing correction

  R

  •

  GNU General Public License v3.0

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

• docker

  Public
  Dockerfiles and docker-compose for MOLGENIS

  Dockerfile

  •

  GNU Lesser General Public License v3.0

  •19•4•5•1•Updated Jul 29, 2025Jul 29, 2025

• molgenis

  Public
  MOLGENIS - for scientific data: management, exploration, integration and analysis.

  javascriptbioinformaticsgenetics+ 6cataloguefreemarkerbiobanklifesciencejavamolgenis

  Java

  •

  GNU Lesser General Public License v3.0

  •96•118•313•4•Updated Jul 29, 2025Jul 29, 2025