NBIS - National Bioinformatics Infrastructure Sweden

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298 repositories

AGAT
Public
Another Gtf/Gff Analysis Toolkit
toolkit perl-scripts gff gtf agat standardisation gff-format
Perl
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GNU General Public License v3.0
•56•466•23•1•Updated Nov 27, 2024Nov 27, 2024
Earth-Biogenome-Project-pilot
Public
Assembly and Annotation workflows for analysing data in the Earth Biogenome Project pilot project.
Nextflow
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GNU General Public License v3.0
•8•12•48•2•Updated Nov 27, 2024Nov 27, 2024
workshop-reproducible-research
Public
NBIS/Elixir course: Tools for Reproducible Research
HTML
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Creative Commons Attribution 4.0 International
•32•60•2•0•Updated Nov 27, 2024Nov 27, 2024
EGA-SE-user-docs
Public
Repository with all the information and documents for the the users of ega-se
neic-sda
0•1•0•1•Updated Nov 27, 2024Nov 27, 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
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GNU General Public License v3.0
•7•25•14•0•Updated Nov 27, 2024Nov 27, 2024
workshop-pgip-H24
Public
Population genomics in practice H24
TeX
•0•0•0•0•Updated Nov 27, 2024Nov 27, 2024
sda-uppmax-integration
Public
Go
•0•0•1•1•Updated Nov 27, 2024Nov 27, 2024
urdr
Public
Timelogging system of NBIS
TypeScript
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GNU Affero General Public License v3.0
•1•0•52•18•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
workshop-ngsintro
Public
Workshop • Intro to Bioinformatics using NGS data • 5 days
rnaseq variant-calling unix-shell ngs-analysis bioinformatics
HTML
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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-biology integrative-omics
HTML
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GNU General Public License v3.0
•35•71•10•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
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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-template genome-annotation genome-analysis genome-assembly
Shell
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MIT License
•1•3•1•1•Updated Nov 19, 2024Nov 19, 2024
beacon-production-prototype
Public
Python
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Apache License 2.0
•4•0•0•4•Updated Nov 18, 2024Nov 18, 2024
module-rstudio-intro-dm-practices
Public
R
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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
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Other
•3•0•0•0•Updated Nov 15, 2024Nov 15, 2024
module-data-publication-dm-practices
Public
Ruby
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Other
•0•0•0•0•Updated Nov 15, 2024Nov 15, 2024
module-versioning-dm-practices
Public
Ruby
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Other
•0•0•1•0•Updated Nov 14, 2024Nov 14, 2024
module-r-intro-dm-practices
Public
R
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Other
•2•1•0•0•Updated Nov 14, 2024Nov 14, 2024
module-organising-data-dm-practices
Public
Ruby
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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
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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
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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
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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
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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
club meeting teaching literature nbis
Mermaid
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GNU General Public License v3.0
•1•0•0•0•Updated Nov 9, 2024Nov 9, 2024