Repositories list

• GenErode

  Public

  NBISweden/GenErode’s past year of commit activity
  GitHub repository for GenErode, a Snakemake workflow for the analysis of whole-genome sequencing data from historical and modern samples to study patterns of ge…

  Python

  •

  GNU General Public License v3.0

  •66 forks in NBISweden/GenErode•3232 stars in NBISweden/GenErode•1818 issues in NBISweden/GenErode•22 pull requests in NBISweden/GenErode•Updated Nov 4, 2026Nov 4, 2026

• MrBayes

  Public

  NBISweden/MrBayes’s past year of commit activity
  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+ 2

  bioinformaticsphylogeneticsresearch-toolbayesian-inferencemarkov-chain-monte-carlo

  C

  •

  GNU General Public License v3.0

  •8787 forks in NBISweden/MrBayes•280280 stars in NBISweden/MrBayes•5555 issues in NBISweden/MrBayes•00 pull requests in NBISweden/MrBayes•Updated Nov 4, 2026Nov 4, 2026

• swefreq

  Public
  Swedish Frequency resource for genomics website

  javascriptmysqlpython+ 1

  javascriptmysqlpythonangularjs

  Python

  •

  GNU General Public License v3.0

  •11 fork in NBISweden/swefreq•77 stars in NBISweden/swefreq•00 issues in NBISweden/swefreq•44 pull requests in NBISweden/swefreq•Updated Nov 4, 2026Nov 4, 2026

• SCoRe_user_doc

  Public

  NBISweden/SCoRe_user_doc’s past year of commit activity
  SCoRe user documentation

  documentationuserscore

  documentationuserscore

  Shell

  •

  GNU General Public License v3.0

  •00 forks in NBISweden/SCoRe_user_doc•00 stars in NBISweden/SCoRe_user_doc•44 issues in NBISweden/SCoRe_user_doc•00 pull requests in NBISweden/SCoRe_user_doc•Updated Nov 4, 2026Nov 4, 2026

• workshop-ngsintro

  Public

  NBISweden/workshop-ngsintro’s past year of commit activity
  Workshop • Intro to Bioinformatics using NGS data • 5 days

  bioinformaticsrnaseqvariant-calling+ 2

  bioinformaticsrnaseqvariant-callingunix-shellngs-analysis

  HTML

  •

  Other

  •99 forks in NBISweden/workshop-ngsintro•1919 stars in NBISweden/workshop-ngsintro•00 issues in NBISweden/workshop-ngsintro•00 pull requests in NBISweden/workshop-ngsintro•Updated Nov 3, 2026Nov 3, 2026

• sda-download-ui

  Public

  NBISweden/sda-download-ui’s past year of commit activity
  Repository containing the UI implementation of the sda-download service

  TypeScript

  •

  GNU Affero General Public License v3.0

  •00 forks in NBISweden/sda-download-ui•00 stars in NBISweden/sda-download-ui•66 issues in NBISweden/sda-download-ui•55 pull requests in NBISweden/sda-download-ui•Updated Nov 3, 2026Nov 3, 2026

• sdafs

  Public

  NBISweden/sdafs’s past year of commit activity
  FUSE file system driver for the sensitive data archive with a CSI driver for use in Kubernetes

  Go

  •

  MIT License

  •00 forks in NBISweden/sdafs•00 stars in NBISweden/sdafs•00 issues in NBISweden/sdafs•00 pull requests in NBISweden/sdafs•Updated Nov 3, 2026Nov 3, 2026

• workshop-r

  Public

  NBISweden/workshop-r’s past year of commit activity
  Workshop • R Programming Foundations for Data Analysis • 5 days

  rworkshopr-programming+ 1

  rworkshopr-programminglife-scientists

  CSS

  •

  GNU General Public License v3.0

  •1010 forks in NBISweden/workshop-r•1010 stars in NBISweden/workshop-r•00 issues in NBISweden/workshop-r•00 pull requests in NBISweden/workshop-r•Updated Nov 3, 2026Nov 3, 2026

• biovat

  Public
  BioVAT (BIOdiversity Variant Analysis Toolkit), a modular Nextflow pipeline for population genomics analysis of non-model organisms

  Nextflow

  •

  MIT License

  •00 forks in NBISweden/biovat•00 stars in NBISweden/biovat•4242 issues in NBISweden/biovat•1919 pull requests in NBISweden/biovat•Updated Nov 3, 2026Nov 3, 2026

• sda-cli

  Public

  NBISweden/sda-cli’s past year of commit activity
  User command line interface for the SDA

  Go

  •

  GNU Affero General Public License v3.0

  •11 fork in NBISweden/sda-cli•66 stars in NBISweden/sda-cli•3535 issues in NBISweden/sda-cli•22 pull requests in NBISweden/sda-cli•Updated Nov 3, 2026Nov 3, 2026

• workshop-scRNAseq

  Public

  NBISweden/workshop-scRNAseq’s past year of commit activity
  Single cell RNA sequencing analysis course

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •115115 forks in NBISweden/workshop-scRNAseq•245245 stars in NBISweden/workshop-scRNAseq•11 issue in NBISweden/workshop-scRNAseq•00 pull requests in NBISweden/workshop-scRNAseq•Updated Nov 3, 2026Nov 3, 2026

• bird-ringing

  Public
  A web-based interface and database for managing bird-ringing data on behalf of the Bird Ringing Centre at the Swedish Museum of Natural History, implemented tog…

  Python

  •

  MIT License

  •00 forks in NBISweden/bird-ringing•11 star in NBISweden/bird-ringing•3434 issues in NBISweden/bird-ringing•22 pull requests in NBISweden/bird-ringing•Updated Nov 3, 2026Nov 3, 2026

• urdr

  Public

  NBISweden/urdr’s past year of commit activity
  Timelogging system of NBIS

  TypeScript

  •

  GNU Affero General Public License v3.0

  •11 fork in NBISweden/urdr•00 stars in NBISweden/urdr•5353 issues in NBISweden/urdr•66 pull requests in NBISweden/urdr•Updated Nov 3, 2026Nov 3, 2026

• Earth-Biogenome-Project-pilot

  Public

  NBISweden/Earth-Biogenome-Project-pilot’s past year of commit activity
  An assembly workflow for analysing data in the Earth Biogenome Project pilot project.

  Nextflow

  •

  GNU General Public License v3.0

  •1313 forks in NBISweden/Earth-Biogenome-Project-pilot•1919 stars in NBISweden/Earth-Biogenome-Project-pilot•152152 issues in NBISweden/Earth-Biogenome-Project-pilot•44 pull requests in NBISweden/Earth-Biogenome-Project-pilot•Updated Nov 3, 2026Nov 3, 2026

• bp-dod-sda-gateway

  Public

  NBISweden/bp-dod-sda-gateway’s past year of commit activity
  00 forks in NBISweden/bp-dod-sda-gateway•00 stars in NBISweden/bp-dod-sda-gateway•00 issues in NBISweden/bp-dod-sda-gateway•11 pull request in NBISweden/bp-dod-sda-gateway•Updated Nov 3, 2026Nov 3, 2026

• workshop-biomarker

  Public

  NBISweden/workshop-biomarker’s past year of commit activity
  Workshop • Biomarker Discovery : from theory to real world examples - DDLS • 3 days

  Shell

  •

  GNU General Public License v3.0

  •00 forks in NBISweden/workshop-biomarker•00 stars in NBISweden/workshop-biomarker•11 issue in NBISweden/workshop-biomarker•00 pull requests in NBISweden/workshop-biomarker•Updated Nov 2, 2026Nov 2, 2026

• sda-bpctl

  Public
  Developer Tool for Big Picture Dataset Submissions

  Go

  •

  GNU Affero General Public License v3.0

  •00 forks in NBISweden/sda-bpctl•00 stars in NBISweden/sda-bpctl•11 issue in NBISweden/sda-bpctl•11 pull request in NBISweden/sda-bpctl•Updated Nov 2, 2026Nov 2, 2026

• sda-uppmax-integration

  Public
  Go

  •00 forks in NBISweden/sda-uppmax-integration•00 stars in NBISweden/sda-uppmax-integration•00 issues in NBISweden/sda-uppmax-integration•11 pull request in NBISweden/sda-uppmax-integration•Updated Nov 2, 2026Nov 2, 2026

• klk4-isoform-analysis

  Public
  Shell

  •

  MIT License

  •00 forks in NBISweden/klk4-isoform-analysis•00 stars in NBISweden/klk4-isoform-analysis•00 issues in NBISweden/klk4-isoform-analysis•00 pull requests in NBISweden/klk4-isoform-analysis•Updated Nov 2, 2026Nov 2, 2026

• raukr-2027

  Public
  Raukr 2027 • NBIS Summer School • Data Science with R

  courseworkshopr-programming+ 5

  courseworkshopr-programmingquartoraukrr-coursenbiswedenr-workshop

  JavaScript

  •

  Other

  •00 forks in NBISweden/raukr-2027•00 stars in NBISweden/raukr-2027•5959 issues in NBISweden/raukr-2027•00 pull requests in NBISweden/raukr-2027•Updated Nov 1, 2026Nov 1, 2026

• raukr

  Public
  RaukR • Data Science with R

  courseworkshopr-programming+ 3

  courseworkshopr-programmingquartoraukrr-course

  SCSS

  •

  GNU General Public License v3.0

  •00 forks in NBISweden/raukr•00 stars in NBISweden/raukr•00 issues in NBISweden/raukr•00 pull requests in NBISweden/raukr•Updated Nov 1, 2026Nov 1, 2026

• bp-landing-pages

  Public

  NBISweden/bp-landing-pages’s past year of commit activity
  Bigpicture project dataset landing page generator

  HTML

  •00 forks in NBISweden/bp-landing-pages•00 stars in NBISweden/bp-landing-pages•00 issues in NBISweden/bp-landing-pages•55 pull requests in NBISweden/bp-landing-pages•Updated Nov 1, 2026Nov 1, 2026

• workshop-epigenomics

  Public
  Epigenomics Workshop • Epigenomics Data Analysis • From Bulk to Single Cell

  chip-seqatac-seqdna-methylation+ 2

  chip-seqatac-seqdna-methylationsingle-cell-genomicsepigenomics

  Lua

  •

  Creative Commons Attribution Share Alike 4.0 International

  •22 forks in NBISweden/workshop-epigenomics•33 stars in NBISweden/workshop-epigenomics•00 issues in NBISweden/workshop-epigenomics•11 pull request in NBISweden/workshop-epigenomics•Updated Oct 30, 2026Oct 30, 2026

• bp-sweden-web

  Public
  Website for BigPicture Sweden

  SCSS

  •

  MIT License

  •11 fork in NBISweden/bp-sweden-web•00 stars in NBISweden/bp-sweden-web•66 issues in NBISweden/bp-sweden-web•11 pull request in NBISweden/bp-sweden-web•Updated Oct 29, 2026Oct 29, 2026

• workshop-python

  Public
  Creative Commons Attribution 4.0 International

  •1111 forks in NBISweden/workshop-python•99 stars in NBISweden/workshop-python•22 issues in NBISweden/workshop-python•00 pull requests in NBISweden/workshop-python•Updated Oct 28, 2026Oct 28, 2026

• strobealign-evaluation

  Public
  Python

  •22 forks in NBISweden/strobealign-evaluation•33 stars in NBISweden/strobealign-evaluation•00 issues in NBISweden/strobealign-evaluation•11 pull request in NBISweden/strobealign-evaluation•Updated Oct 27, 2026Oct 27, 2026

• data-submission-documentation

  Public
  Documentation for data submissions from life science research in public repositories

  Python

  •00 forks in NBISweden/data-submission-documentation•55 stars in NBISweden/data-submission-documentation•00 issues in NBISweden/data-submission-documentation•00 pull requests in NBISweden/data-submission-documentation•Updated Oct 27, 2026Oct 27, 2026

• redmine_utils

  Public
  Various script used to manage Redmine.

  Python

  •00 forks in NBISweden/redmine_utils•00 stars in NBISweden/redmine_utils•00 issues in NBISweden/redmine_utils•00 pull requests in NBISweden/redmine_utils•Updated Oct 23, 2026Oct 23, 2026

• Training-Tech-shorts

  Public
  Short lessons, training various Research Software Engineering tools useful to our work.

  terminalnextflowhpc+ 5

  terminalnextflowhpcvscodeconfluencetips-and-tricksresearch-software-engineeringquarto

  Markdown

  •1818 forks in NBISweden/Training-Tech-shorts•1414 stars in NBISweden/Training-Tech-shorts•4141 issues in NBISweden/Training-Tech-shorts•00 pull requests in NBISweden/Training-Tech-shorts•Updated Oct 23, 2026Oct 23, 2026

• chromatin-biology-tech-group

  Public
  Repository of chromatin biology tech group

  Creative Commons Zero v1.0 Universal

  •00 forks in NBISweden/chromatin-biology-tech-group•11 star in NBISweden/chromatin-biology-tech-group•00 issues in NBISweden/chromatin-biology-tech-group•00 pull requests in NBISweden/chromatin-biology-tech-group•Updated Oct 23, 2026Oct 23, 2026