Repositories list

• urdr

  Public
  Timelogging system of NBIS

  TypeScript

  •

  GNU Affero General Public License v3.0

  •1•0•52•17•Updated Nov 26, 2024Nov 26, 2024

• workshop-reproducible-research

  Public
  NBIS/Elixir course: Tools for Reproducible Research

  HTML

  •

  Creative Commons Attribution 4.0 International

  •32•60•0•0•Updated Nov 26, 2024Nov 26, 2024

• GenErode

  Public
  GitHub repository for GenErode, a Snakemake pipeline for the analysis of whole-genome sequencing data from historical and modern samples to study patterns of genome erosion.

  Python

  •

  GNU General Public License v3.0

  •7•25•19•1•Updated Nov 26, 2024Nov 26, 2024

• sll_vr_reporting_utils

  Public
  Scripts used to dig out the data needed for the SciLifeLab and VR yearly reports.

  Python

  •1•0•0•0•Updated Nov 26, 2024Nov 26, 2024

• Earth-Biogenome-Project-pilot

  Public
  Assembly and Annotation workflows for analysing data in the Earth Biogenome Project pilot project.

  Nextflow

  •

  GNU General Public License v3.0

  •8•12•48•2•Updated Nov 26, 2024Nov 26, 2024

• workshop-ngsintro

  Public
  Workshop • Intro to Bioinformatics using NGS data • 5 days

  rnaseqvariant-callingunix-shell+ 2ngs-analysisbioinformatics

  HTML

  •

  GNU General Public License v3.0

  •6•14•0•0•Updated Nov 25, 2024Nov 25, 2024

• workshop_omics_integration

  Public
  Workshop in omics integration and systems biology

  systems-biologyintegrative-omics

  HTML

  •

  GNU General Public License v3.0

  •35•71•10•2•Updated Nov 25, 2024Nov 25, 2024

• sda-uppmax-integration

  Public
  Go

  •0•0•1•2•Updated Nov 25, 2024Nov 25, 2024

• data-submission-documentation

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

  Python

  •0•3•0•1•Updated Nov 25, 2024Nov 25, 2024

• sda-cli

  Public
  User command line interface for the SDA

  Go

  •

  GNU Affero General Public License v3.0

  •1•5•42•1•Updated Nov 25, 2024Nov 25, 2024

• workshop-scRNAseq-devel

  Public
  Single cell RNA sequencing analysis course

  HTML

  •99•0•0•0•Updated Nov 20, 2024Nov 20, 2024

• assembly-project-template

  Public template
  This is a template for all assembly projects. Please read the instructions below on how to use it.

  project-templategenome-annotationgenome-analysis+ 1genome-assembly

  Shell

  •

  MIT License

  •1•3•1•1•Updated Nov 19, 2024Nov 19, 2024

• beacon-production-prototype

  Public
  Python

  •

  Apache License 2.0

  •4•0•0•4•Updated Nov 18, 2024Nov 18, 2024

• module-rstudio-intro-dm-practices

  Public
  R

  •

  Other

  •2•0•1•0•Updated Nov 18, 2024Nov 18, 2024

• Containerized-Compute-Helm-Charts

  Public
  Fork for working on CC Helm charts

  Shell

  •1•0•0•0•Updated Nov 16, 2024Nov 16, 2024

• workshop-python

  Public
  Apache License 2.0

  •11•8•4•0•Updated Nov 15, 2024Nov 15, 2024

• module-openrefine-dm-practices

  Public
  Ruby

  •

  Other

  •3•0•0•0•Updated Nov 15, 2024Nov 15, 2024

• module-data-publication-dm-practices

  Public
  Ruby

  •

  Other

  •0•0•0•0•Updated Nov 15, 2024Nov 15, 2024

• module-versioning-dm-practices

  Public
  Ruby

  •

  Other

  •0•0•1•0•Updated Nov 14, 2024Nov 14, 2024

• module-r-intro-dm-practices

  Public
  R

  •

  Other

  •2•1•0•0•Updated Nov 14, 2024Nov 14, 2024

• module-organising-data-dm-practices

  Public
  Ruby

  •

  Other

  •2•0•0•0•Updated Nov 14, 2024Nov 14, 2024

• workshop-epigenomics-RTDs

  Public
  workshop website on readthedocs

  13•19•0•0•Updated Nov 14, 2024Nov 14, 2024

• module-dmp-dm-practices

  Public
  dmp

  Ruby

  •

  Other

  •1•1•0•0•Updated Nov 14, 2024Nov 14, 2024

• module-open-science-dm-practices

  Public
  Open Science module for Data Management course (carpentries style)

  Ruby

  •

  Other

  •1•2•0•0•Updated Nov 14, 2024Nov 14, 2024

• module-metadata-dm-practices

  Public
  Metadata module for Data Management course (carpentries style)

  Ruby

  •

  Other

  •0•1•0•0•Updated Nov 14, 2024Nov 14, 2024

• gdi-sweden-sops

  Public
  Standard operating procedures (SOPs) for the Swedish node of the European Genomic Data Infrastructure (GDI).

  Python

  •

  GNU Affero General Public License v3.0

  •3•0•0•0•Updated Nov 11, 2024Nov 11, 2024

• teaching_literature_club

  Public
  NBIS' teaching literature club

  clubmeetingteaching+ 2literaturenbis

  Mermaid

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Nov 9, 2024Nov 9, 2024

• workshop-r

  Public
  Workshop • R Programming Foundations for Life Scientists • 5 days

  rr-programmingworkshop+ 1life-scientists

  CSS

  •

  GNU General Public License v3.0

  •10•7•0•0•Updated Nov 8, 2024Nov 8, 2024

• vector-oligo-search

  Public
  Python

  •

  GNU General Public License v3.0

  •1•0•1•1•Updated Nov 7, 2024Nov 7, 2024

• redmine_surveys_notifier

  Public
  This plugin allows to send a survey when a support issue is closed

  Ruby

  •0•2•1•0•Updated Nov 4, 2024Nov 4, 2024