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    374 repositories

    • sda-cli

      Public
      User command line interface for the SDA
      Go
      •
      GNU Affero General Public License v3.0
      •1•6•40•3•Updated Sep 12, 2026Sep 12, 2026

    • SCoRe_user_doc

      Public
      SCoRe user documentation
      documentationuserscore
      documentationuserscore
      Shell
      •
      GNU General Public License v3.0
      •0•0•4•0•Updated Sep 12, 2026Sep 12, 2026

    • sda-download-ui

      Public
      Repository containing the UI implementation of the sda-download service
      TypeScript
      •
      GNU Affero General Public License v3.0
      •0•0•18•8•Updated Sep 11, 2026Sep 11, 2026

    • biovat

      Public
      BioVAT (BIOdiversity Variant Analysis Toolkit), a modular Nextflow pipeline for population genomics analysis of non-model organisms
      Nextflow
      •
      MIT License
      •0•0•33•2•Updated Sep 11, 2026Sep 11, 2026

    • workshop-epigenomics

      Public
      Lua
      •
      Creative Commons Attribution Share Alike 4.0 International
      •1•2•0•0•Updated Sep 11, 2026Sep 11, 2026

    • fungal-trans

      Public
      A Snakemake workflow for fungal metatranscriptomics
      Python
      •
      MIT License
      •3•4•1•0•Updated Sep 11, 2026Sep 11, 2026

    • sda-bpctl

      Public
      Developer Tool for Big Picture Dataset Submissions
      Go
      •
      GNU Affero General Public License v3.0
      •0•0•1•1•Updated Sep 11, 2026Sep 11, 2026

    • workshop-mlbiostatistics

      Public
      Geared towards life scientists wanting to be able to understand and use basic statistical and machine learning methods
      statisticsworkshopbiostatistics
      statisticsworkshopbiostatisticsworkshop-materialsstatistics-coursestatistics-learningbiostatistics-course
      HTML
      •9•18•0•0•Updated Sep 11, 2026Sep 11, 2026

    • bp-sweden-web

      Public
      Website for BigPicture Sweden
      SCSS
      •
      MIT License
      •1•0•3•0•Updated Sep 11, 2026Sep 11, 2026

    • aida-datahub-docs

      Public
      Documentation for AIDA datahub services
      0•1•1•2•Updated Sep 11, 2026Sep 11, 2026

    • urdr

      Public
      Timelogging system of NBIS
      TypeScript
      •
      GNU Affero General Public License v3.0
      •1•0•50•14•Updated Sep 10, 2026Sep 10, 2026

    • nf-core-aMeta

      Public
      An nf-core compliant version of aMeta; An ancient metagenomic profiling Snakemake workflow
      Nextflow
      •
      MIT License
      •3•2•0•0•Updated Sep 9, 2026Sep 9, 2026

    • chromatin-biology-tech-group

      Public
      Repository of chromatin biology tech group
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Sep 9, 2026Sep 9, 2026

    • Training-Tech-shorts

      Public
      Short lessons, training various Research Software Engineering tools useful to our work.
      terminalnextflowhpc
      terminalnextflowhpcvscodeconfluencetips-and-tricksresearch-software-engineeringquarto
      Markdown
      •18•13•44•0•Updated Sep 9, 2026Sep 9, 2026

    • sdafs

      Public
      FUSE file system driver for the sensitive data archive with a CSI driver for use in Kubernetes
      Go
      •
      MIT License
      •0•0•0•1•Updated Sep 7, 2026Sep 7, 2026

    • AGAT

      Public
      Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
      toolkitperl-scriptsgtf
      toolkitperl-scriptsgtfgffagatstandardisationgff-format
      HTML
      •
      GNU General Public License v3.0
      •66•588•27•0•Updated Sep 7, 2026Sep 7, 2026

    • redmine_utils

      Public
      Various script used to manage Redmine.
      Python
      •0•0•0•0•Updated Sep 7, 2026Sep 7, 2026

    • workshop-ngsintro

      Public
      Workshop • Intro to Bioinformatics using NGS data • 5 days
      bioinformaticsrnaseqvariant-calling
      bioinformaticsrnaseqvariant-callingunix-shellngs-analysis
      HTML
      •
      Other
      •8•17•0•0•Updated Sep 5, 2026Sep 5, 2026

    • workshop-reproducible-research

      Public
      NBIS/Elixir course: Tools for Reproducible Research
      HTML
      •
      Creative Commons Attribution 4.0 International
      •41•69•1•1•Updated Sep 5, 2026Sep 5, 2026

    • DNAharvester

      Public
      DNAharvester: A Nextflow Pipeline for Analysing Highly Degraded DNA from Ancient and Historical Specimens
      Nextflow
      •
      GNU General Public License v3.0
      •0•13•14•1•Updated Sep 4, 2026Sep 4, 2026

    • sda-uppmax-integration

      Public
      Go
      •0•0•0•0•Updated Sep 3, 2026Sep 3, 2026

    • workshop-python

      Public
      Creative Commons Attribution 4.0 International
      •11•8•2•0•Updated Sep 3, 2026Sep 3, 2026

    • sda-services-backup

      Public
      neic-sda
      neic-sda
      Go
      •1•2•1•4•Updated Sep 3, 2026Sep 3, 2026

    • grave

      Public
      A Nextflow workflow for aligning, genotyping, and variant calling ancient or modern DNA against pangenome graphs
      Nextflow
      •
      MIT License
      •0•4•12•1•Updated Sep 2, 2026Sep 2, 2026

    • strobealign-evaluation

      Public
      Python
      •2•3•0•1•Updated Sep 2, 2026Sep 2, 2026

    • data-submission-documentation

      Public
      Documentation for data submissions from life science research in public repositories
      Python
      •0•5•0•0•Updated Sep 2, 2026Sep 2, 2026

    • bp-landing-pages

      Public
      Bigpicture project dataset landing page generator
      HTML
      •0•0•0•3•Updated Sep 1, 2026Sep 1, 2026

    • workshop-biomarker

      Public
      Workshop • Biomarker Discovery : from theory to real world examples - DDLS • 3 days
      TeX
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 31, 2026Aug 31, 2026

    • MrBayes

      Public
      MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the …
      bioinformaticsphylogeneticsresearch-tool
      bioinformaticsphylogeneticsresearch-toolbayesian-inferencemarkov-chain-monte-carlo
      C
      •
      GNU General Public License v3.0
      •87•278•75•0•Updated Aug 31, 2026Aug 31, 2026

    • test-datasets

      Public
      Test data to be used for automated testing with the nf-core pipelines
      MIT License
      •528•0•0•0•Updated Aug 26, 2026Aug 26, 2026
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