NBIS - National Bioinformatics Infrastructure Sweden
NBIS is a distributed national bioinformatics infrastructure, supporting life sciences in Sweden.
Sweden
Pinned Repositories
AGAT
Another Gtf/Gff Analysis Toolkit
development-guidelines
Development guidlines for software within NBIS.
EMBLmyGFF3
An efficient way to convert gff3 annotation files into EMBL format ready to submit.
excelerate-scRNAseq
Single RNA-seq data analysis with R (Finland, May, 2019)
GAAS
Genome Assembly and Annotation Service code
IgDiscover-legacy
Analyze antibody repertoires and discover new V genes from high-throughput sequencing reads
MrBayes
MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:
workshop-reproducible-research
NBIS/Elixir course: Tools for Reproducible Research
workshop-scRNAseq
Single cell RNA sequencing analysis course
workshop_omics_integration
Workshop in omics integration and systems biology
NBIS - National Bioinformatics Infrastructure Sweden's Repositories
NBISweden/workshop-reproducible-research
NBIS/Elixir course: Tools for Reproducible Research
NBISweden/GenErode
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.
NBISweden/workshop-epigenomics-RTDs
workshop website on readthedocs
NBISweden/workshop-ngsintro
Workshop • Intro to Bioinformatics using NGS data • 5 days
NBISweden/Earth-Biogenome-Project-pilot
Assembly and Annotation workflows for analysing data in the Earth Biogenome Project pilot project.
NBISweden/workshop-python
NBISweden/workshop-r
Workshop • R Programming Foundations for Life Scientists • 5 days
NBISweden/sda-cli
User command line interface for the SDA
NBISweden/assembly-project-template
This is a template for all assembly projects. Please read the instructions below on how to use it.
NBISweden/data-submission-documentation
Documentation for data submissions from life science research in public repositories
NBISweden/module-open-science-dm-practices
Open Science module for Data Management course (carpentries style)
NBISweden/redmine_surveys_notifier
This plugin allows to send a survey when a support issue is closed
NBISweden/module-dmp-dm-practices
NBISweden/module-metadata-dm-practices
Metadata module for Data Management course (carpentries style)
NBISweden/module-r-intro-dm-practices
NBISweden/tissue-adherent-VMB
contains the code related to the article "Distinct cervical tissue-adherent and luminal microbiome communities correlate with mucosal host gene expression and protein levels in Kenyan sex workers"
NBISweden/module-openrefine-dm-practices
NBISweden/urdr
Timelogging system of NBIS
NBISweden/beacon-production-prototype
NBISweden/Containerized-Compute-Helm-Charts
Fork for working on CC Helm charts
NBISweden/gdi-sweden-sops
A repository for managing standard operating procedure (SOP) resources for the Swedish node of the GDI project.
NBISweden/module-data-publication-dm-practices
NBISweden/module-organising-data-dm-practices
NBISweden/module-rstudio-intro-dm-practices
NBISweden/module-versioning-dm-practices
NBISweden/sda-uppmax-integration
NBISweden/sll_vr_reporting_utils
Scripts used to dig out the data needed for the SciLifeLab and VR yearly reports.
NBISweden/teaching_literature_club
NBIS' teaching literature club
NBISweden/vector-oligo-search
NBISweden/workshop-scRNAseq-devel
Single cell RNA sequencing analysis course