NBIS - National Bioinformatics Infrastructure Sweden

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309 repositories

workshop-scRNAseq-devel
Public
Single cell RNA sequencing analysis course
Jupyter Notebook
•101•0•3•0•Updated Feb 7, 2025Feb 7, 2025
fungal-trans
Public
A Snakemake workflow for fungal metatranscriptomics
Python
•
MIT License
•4•4•1•0•Updated Feb 7, 2025Feb 7, 2025
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•60•1•Updated Feb 6, 2025Feb 6, 2025
ceph_utils
Public
Various scripts used to setup and interact with a Ceph cluster
Shell
•0•1•0•0•Updated Feb 6, 2025Feb 6, 2025
assembly-project-template
Public template
This is a template for all assembly projects. Please read the instructions below on how to use it.
project-template genome-annotation genome-analysis genome-assembly
Shell
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MIT License
•2•3•4•1•Updated Feb 6, 2025Feb 6, 2025
data-submission-documentation
Public
Documentation for data submissions from life science research in public repositories
Python
•0•3•0•5•Updated Feb 6, 2025Feb 6, 2025
aida-genai-workshop
Public
Workshop files for the AIDA Data Hub Generative AI workshop
Python
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MIT License
•1•0•0•0•Updated Feb 6, 2025Feb 6, 2025
bp-sweden-web
Public
Website for BigPicture Sweden
SCSS
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MIT License
•0•0•1•0•Updated Feb 5, 2025Feb 5, 2025
strobealign-evaluation
Public
Python
•0•0•0•0•Updated Feb 5, 2025Feb 5, 2025
workshop-reproducible-research
Public
NBIS/Elixir course: Tools for Reproducible Research
HTML
•
Creative Commons Attribution 4.0 International
•32•63•7•0•Updated Feb 5, 2025Feb 5, 2025
bp-landing-pages
Public
Bigpicture project dataset landing page generator
HTML
•0•0•0•0•Updated Feb 4, 2025Feb 4, 2025
sda-services-backup
Public
neic-sda
Go
•1•2•1•1•Updated Feb 4, 2025Feb 4, 2025
teaching_literature_club
Public
NBIS' teaching literature club
club meeting teaching literature nbis
Shell
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GNU General Public License v3.0
•1•0•0•0•Updated Feb 3, 2025Feb 3, 2025
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•15•2•Updated Feb 3, 2025Feb 3, 2025
urdr
Public
Timelogging system of NBIS
TypeScript
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GNU Affero General Public License v3.0
•1•0•57•21•Updated Feb 2, 2025Feb 2, 2025
nbis-webapp
Public
Hosting service for NBIS web applications during development
Shell
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MIT License
•0•0•0•0•Updated Jan 31, 2025Jan 31, 2025
sda-cli
Public
User command line interface for the SDA
Go
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GNU Affero General Public License v3.0
•1•5•51•0•Updated Jan 31, 2025Jan 31, 2025
NanoSeq-fork
Public
Analysis software for Nanorate Sequencing (NanoSeq) experiments
C++
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GNU Affero General Public License v3.0
•10•0•0•0•Updated Jan 31, 2025Jan 31, 2025
PLP_Design_Portal
Public
This repository contains a package to create padlock probes that target RNA directly and for developing a user-friendly.portal
0•0•11•0•Updated Jan 30, 2025Jan 30, 2025
workshop-mlbiostatistics
Public
HTML
•8•15•0•0•Updated Jan 30, 2025Jan 30, 2025
predictprotein-webserver-topcons2
Public
web-server implementation for topcons2
HTML
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MIT License
•0•1•14•4•Updated Jan 29, 2025Jan 29, 2025
AGAT
Public
Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
toolkit perl-scripts gtf gff agat standardisation gff-format
Perl
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GNU General Public License v3.0
•58•479•18•1•Updated Jan 29, 2025Jan 29, 2025
sdafs
Public
FUSE file system driver for the sensitive data archive
Go
•
MIT License
•0•0•0•1•Updated Jan 27, 2025Jan 27, 2025
harbor-helm
Public
Harbor helm chart for BP AI registry
Mustache
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Apache License 2.0
•766•0•0•0•Updated Jan 27, 2025Jan 27, 2025
sda-uppmax-integration
Public
Go
•0•0•0•0•Updated Jan 27, 2025Jan 27, 2025
module-metadata-dm-practices
Public
Metadata module for Data Management course (carpentries style)
Ruby
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Other
•0•1•0•0•Updated Jan 27, 2025Jan 27, 2025
nf-core-aMeta
Public
An nf-core compliant version of aMeta; An ancient metagenomic profiling Snakemake workflow
Nextflow
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MIT License
•2•1•1•2•Updated Jan 24, 2025Jan 24, 2025
workshop-ngsintro
Public
Workshop • Intro to Bioinformatics using NGS data • 5 days
rnaseq variant-calling unix-shell ngs-analysis bioinformatics
HTML
•
GNU General Public License v3.0
•7•14•0•0•Updated Jan 24, 2025Jan 24, 2025
raukr-2025
Public
Raukr 2025 • NBIS Summer School • R Beyond the Basics
training workshop r-programming nbis r-code nbisweden
Lua
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GNU General Public License v3.0
•0•0•0•0•Updated Jan 24, 2025Jan 24, 2025
raukr
Public
RaukR • R Beyond The Basics
course workshop r-programming quarto raukr r-course
SCSS
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GNU General Public License v3.0
•0•0•0•0•Updated Jan 24, 2025Jan 24, 2025