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    37 repositories

    • nallo

      Public
      An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
      nanoporepacbiogmsvariant-callinglong-read-sequencing
      Nextflow
      •
      MIT License
      •8•30•99•4•Updated May 21, 2025May 21, 2025

    • metaval

      Public
      nf-core/taxprofiler post-processing; verification of classification results; consensus maps
      Nextflow
      •
      MIT License
      •2•5•11•1•Updated May 21, 2025May 21, 2025

    • Twist_Solid

      Public
      Pipeline for Solid tumours
      Python
      •
      GNU General Public License v3.0
      •8•3•27•6•Updated May 21, 2025May 21, 2025

    • gms_16S

      Public
      A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
      Nextflow
      •
      GNU General Public License v3.0
      •3•13•26•4•Updated May 20, 2025May 20, 2025

    • jasen

      Public
      Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
      pipelinetypingclinicalresistancemicrobial
      Nextflow
      •
      GNU General Public License v3.0
      •10•11•39•2•Updated May 19, 2025May 19, 2025

    • nallorefs

      Public
      Nextflow
      •
      MIT License
      •1•2•7•0•Updated May 15, 2025May 15, 2025

    • test-datasets

      Public
      Test data to be used for automated testing with the nf-core pipelines
      MIT License
      •402•0•0•0•Updated May 13, 2025May 13, 2025

    • Twist_Solid_pipeline_files

      Public
      Design and filter files used by the pipeline
      0•1•1•0•Updated May 9, 2025May 9, 2025

    • NGPIris

      Public
      NGPIris 👁 (intelligence and repository interface software) is a light-weight tool for interacting with a Boto3 backed Hitachi Content Platform
      Python
      •
      GNU General Public License v2.0
      •3•0•11•1•Updated May 8, 2025May 8, 2025

    • tomte

      Public
      A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
      Nextflow
      •
      MIT License
      •4•13•14•0•Updated May 8, 2025May 8, 2025

    • poppy

      Public
      Python
      •
      GNU General Public License v3.0
      •3•3•4•1•Updated Apr 28, 2025Apr 28, 2025

    • raredisease

      Public
      Call and score variants from WGS/WES of rare disease patients.
      Nextflow
      •
      MIT License
      •44•1•0•0•Updated Apr 24, 2025Apr 24, 2025

    • MIMOSA

      Public
      JavaScript
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Mar 11, 2025Mar 11, 2025

    • modules

      Public
      Repository to host tool-specific module files for the Nextflow DSL2 community!
      Nextflow
      •
      MIT License
      •858•0•0•0•Updated Jan 9, 2025Jan 9, 2025

    • meta-vis

      Public
      Visualisation of metagenomic analysis results
      Python
      •0•1•20•3•Updated Dec 12, 2024Dec 12, 2024

    • gms-artic

      Public
      A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).
      Nextflow
      •
      GNU Affero General Public License v3.0
      •88•10•15•3•Updated Oct 18, 2024Oct 18, 2024

    • taxprofiler

      Public
      Taxonomic profiling of shotgun metagenomic data
      Nextflow
      •
      MIT License
      •50•0•18•0•Updated Oct 11, 2024Oct 11, 2024

    • .github

      Public
      0•0•0•0•Updated Aug 15, 2024Aug 15, 2024

    • MultiQC

      Public
      Aggregate results from bioinformatics analyses across many samples into a single report.
      JavaScript
      •
      GNU General Public License v3.0
      •620•0•0•0•Updated Aug 14, 2024Aug 14, 2024

    • pgx

      Public
      Pharmacogenomics pipeline
      HTML
      •
      GNU General Public License v3.0
      •2•9•4•1•Updated Jul 1, 2024Jul 1, 2024

    • NGPGlue

      Public archive
      Small scripts and other similar NGP solutions of sensitive nature
      Perl
      •
      GNU General Public License v2.0
      •0•0•3•0•Updated May 15, 2024May 15, 2024

    • RareDisease_RNA_workflow

      Public archive
      Nextflow
      •5•2•3•2•Updated Apr 18, 2024Apr 18, 2024

    • gmsmetapost

      Public archive
      GMS Metagenomics post-classification
      Nextflow
      •
      MIT License
      •1•0•13•1•Updated Apr 18, 2024Apr 18, 2024

    • validate-meta

      Public archive
      Python
      •
      MIT License
      •1•0•0•0•Updated Apr 18, 2024Apr 18, 2024

    • micro-site-data-sharing

      Public archive
      This repo shares data between sites for the development of GMS-micro solutions.
      MIT License
      •2•1•0•0•Updated Apr 18, 2024Apr 18, 2024

    • GMS_RD_LR

      Public
      GMS Best practises for long read analysis
      0•0•0•0•Updated Feb 26, 2024Feb 26, 2024

    • Information-specifications

      Public
      GNU General Public License v3.0
      •1•4•1•0•Updated Jan 22, 2024Jan 22, 2024

    • microbiology

      Public
      A repo to collect information about all different projects we have in GMS-Micro
      0•0•0•0•Updated Jan 11, 2024Jan 11, 2024

    • docker-sc2reporter

      Public
      Dockerized version of the sc2reporter program.
      JavaScript
      •
      GNU General Public License v2.0
      •1•0•24•0•Updated Oct 26, 2023Oct 26, 2023

    • nextflow-modules

      Public
      Shared nextflow modules and assets
      Perl
      •
      GNU General Public License v3.0
      •2•0•0•1•Updated Apr 24, 2023Apr 24, 2023