Skip to content

@NationalGenomicsInfrastructure National Genomics Infrastructure

Change the repository type filter

All

    Repositories list

    56 repositories

    • miarka-provision

      Public
      Ansible playbooks for provisioning NGI cluster Miarka
      Jinja
      •16•1•6•0•Updated Apr 16, 2026Apr 16, 2026

    • anglerfish

      Public
      Anglerfish - Nanopore reads from Illumina libraries
      nanoporedemultiplexing
      nanoporedemultiplexing
      Python
      •
      MIT License
      •5•6•17•2•Updated Apr 13, 2026Apr 13, 2026

    • ngisweden.se-publications

      Public
      A GitHub action to fetch a random selection of publications to display on the website
      HTML
      •
      MIT License
      •0•0•0•8•Updated Apr 13, 2026Apr 13, 2026

    • genomics-status

      Public
      Tornado server for tracking samples at NGI Stockholm
      JavaScript
      •
      MIT License
      •21•12•0•4•Updated Apr 10, 2026Apr 10, 2026

    • Yggdrasil

      Public
      Automate anything - traceable plans, reproducible runs.
      automationorchestrationevent-driven
      automationorchestrationevent-driven
      Python
      •
      MIT License
      •3•0•0•0•Updated Apr 10, 2026Apr 10, 2026

    • scilifelab_epps

      Public
      A collection of Genologics Clarity LIMS EPPs used at Scilifelab.
      Python
      •16•6•0•4•Updated Apr 8, 2026Apr 8, 2026

    • dataflow_transfer

      Public
      Tool for transferring data from NAS to HPC
      Python
      •
      MIT License
      •2•0•0•0•Updated Apr 1, 2026Apr 1, 2026

    • ngi_reports

      Public
      Code to generate reports for use by the NGI in SciLifeLab
      Python
      •
      MIT License
      •14•5•0•0•Updated Mar 25, 2026Mar 25, 2026

    • ngi-firn

      Public
      A laboratory freezer inventory management system created with Nuxt4, Vue and UnaUI.
      Vue
      •
      MIT License
      •2•2•0•0•Updated Mar 19, 2026Mar 19, 2026

    • ngisweden.se

      Public
      Wordpress theme and plugins for https://ngisweden.se
      PHP
      •
      MIT License
      •9•0•1•1•Updated Mar 13, 2026Mar 13, 2026

    • dataflow_archive

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated Mar 11, 2026Mar 11, 2026

    • StatusDB_seed_data

      Public
      Holds test data to fire up a dev instance of statusdb
      Shell
      •
      MIT License
      •2•0•0•1•Updated Mar 11, 2026Mar 11, 2026

    • TACA

      Public
      Tool for the Automation of Cleanup and Analyses: tools for projects and data management at NGI Stockholm
      Python
      •
      MIT License
      •20•14•3•1•Updated Mar 10, 2026Mar 10, 2026

    • LIMS2DB

      Public
      Python
      •
      MIT License
      •13•1•0•0•Updated Mar 2, 2026Mar 2, 2026

    • NGI_Element_benchmark

      Public
      HTML
      •
      MIT License
      •1•0•0•0•Updated Feb 20, 2026Feb 20, 2026

    • taca-ngi-pipeline

      Public
      A TACA plugin adding functionality relevant for the ngi_pipeline
      Python
      •
      MIT License
      •14•3•1•0•Updated Feb 20, 2026Feb 20, 2026

    • checklists_generator

      Public
      Python script to dynamically generate the bioinfo production checklists for QC, Delivery and Close of NGI sequencing projects
      Python
      •
      MIT License
      •2•2•0•0•Updated Feb 17, 2026Feb 17, 2026

    • ngi-landing

      Public
      Prototype of a possible new static NGI landing page built with Nuxt.
      Vue
      •1•0•0•0•Updated Jan 28, 2026Jan 28, 2026

    • standalone_scripts

      Public
      Repository to store standalone scripts that do not belong to any bigger package or repository
      Python
      •
      MIT License
      •23•5•0•1•Updated Jan 15, 2026Jan 15, 2026

    • MultiQC_NGI

      Public
      MultiQC plugin for the National Genomics Infrastructure in Stockholm, Sweden.
      Python
      •
      MIT License
      •11•4•0•0•Updated Jan 8, 2026Jan 8, 2026

    • nfcore_rnaseq

      Public
      NGI fork of the original nf-core/rnaseq pipeline. May have minor bugfixes for running the pipeline on the NGI used HPC.
      Nextflow
      •
      MIT License
      •860•0•0•1•Updated Dec 18, 2025Dec 18, 2025

    • NGI_dashboards

      Public
      SciLifeLab NGI Dashboard Code
      dashboardkpi-targetsscilifelab
      dashboardkpi-targetsscilifelabnational-genomics-infrastructure
      HTML
      •
      MIT License
      •7•1•7•0•Updated Nov 27, 2025Nov 27, 2025

    • dmx

      Public
      Helper scripts for demultiplexing
      Python
      •
      MIT License
      •3•0•0•1•Updated Nov 26, 2025Nov 26, 2025

    • irma-provision

      Public archive
      Ansible playbooks for provisioning NGI pipeline and related sw
      Jinja
      •17•1•0•0•Updated Nov 19, 2025Nov 19, 2025

    • ngi_pipeline

      Public
      Code driving the production pipeline at SciLifeLab
      Python
      •26•7•22•0•Updated Nov 10, 2025Nov 10, 2025

    • DailyRead

      Public
      The NGI Daily Read
      Python
      •2•0•2•0•Updated Nov 6, 2025Nov 6, 2025

    • flowcell_parser

      Public
      Collection of python scripts to parse Illumina (demux with bcl2fastq v2.17+) output
      Python
      •
      MIT License
      •18•7•1•0•Updated Nov 5, 2025Nov 5, 2025

    • lims_dashboard

      Public
      Python
      •
      MIT License
      •6•0•0•0•Updated Nov 3, 2025Nov 3, 2025

    • radQC

      Public
      Pipeline for QC of RAD-seq data
      Nextflow
      •
      MIT License
      •1•5•2•0•Updated Oct 22, 2025Oct 22, 2025

    • NGI_scWGS_technote_2025

      Public
      Filtes related benchmarking scWGS kits at NGI Stockholm 2025
      HTML
      •1•0•0•0•Updated Oct 9, 2025Oct 9, 2025
    ProTip! When viewing an organization's repositories, you can use the props. filter to filter by custom property.