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 https://nbisweden.github.io/AGAT/
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/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:
NBISweden/pipelines-nextflow
A set of workflows written in Nextflow for Genome Annotation.
NBISweden/workshop-neural-nets-and-deep-learning
NBIS workshop in Neural Nets and Deep Learning
NBISweden/NBIS-support-framework
A framework for support projects, including templates for reports, data management as well as links to tools and pipelines
NBISweden/raukr-2024
NBIS Summer School • Advanced R for Bioinformatics
NBISweden/contigtax
Taxonomic classification of metagenomic contigs
NBISweden/workshop-snakemake-byoc
NBISweden/cytomine-bp-helm
Helm charts for deploying cytomine (https://doc.cytomine.org/) to a kubernetes environment.
NBISweden/single-cell-pbl
Single Cell Project Based Learning
NBISweden/CMK-NBIS-PRT-project-template
NBIS peer review track project template
NBISweden/ejprd-data
NBISweden/manticore-smk
Snakemake workflow for non-model organism analyses
NBISweden/nf-core-aMeta
An nf-core compliant version of aMeta; An ancient metagenomic profiling Snakemake workflow
NBISweden/predictprotein-webserver-topcons2
web-server implementation for topcons2
NBISweden/libpredweb
Library for prediction web-server
NBISweden/raukr
RaukR • R Beyond The Basics
NBISweden/cytomine-k8s-software-router
Kubernetes software router for cytomine kubernetes deployments
NBISweden/edelbroek2024_shinyapp
Shiny app for displaying Dictyostelium discoideum RNA-seq and proteomics data, from the publication Edelbroek et al. 2024
NBISweden/ega-public-metadata
Python code for interacting with the EGA public metadata API
NBISweden/ejprd-DistributedAnalysisDemonstrator
Local fork used by NBIS staff contributing to EJP-RD
NBISweden/homo-horreum
NBISweden/mimir2librechat
Script to migrate Mimir conversations to LibreChat
NBISweden/NBIS-DM-MARS
NBIS DM - Multi-Repository Data Submission using ISA-JSON
NBISweden/pgip-jlite
PGIP jupyterlite instance
NBISweden/Sloppymerase
Find single-stranded DNA breaks with an error-prone DNA polymerase
NBISweden/SMS_7387_patho_heart
NBISweden/strapi_utils
Various script used to interact with Strapi
NBISweden/styles-dm-practices
Styles for The Carpentries lessons.
NBISweden/TESK
GA4GH Task Execution Service Root Project + Deployment scripts on Kubernetes
NBISweden/timelog-bot
LTS TimeLog bot