Tools and resources

useful bioinformatics tools and resources for you

Tools and Pipelines

Nf-core - Portable, documented and easy to use workflows based on nextflow.

Git - a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency.

Training Resources

Software Carprentries - teaching basic coding skills for research computing to researchers worldwide.

Elixir - brings together life science resources from across Europe, including databases, software tools, training materials, cloud storage and supercomputers.

Code Refinery - teaching all the essential tools so everyone can make full use of software, computing, and data.

Computing Resources

SLUBI computing resources - we have local computing resources at all campuses and strive to coordinate the management of these.

National Academic Infrastructure for Supercomputing in Sweden - organization for high-performance computing, storage, and data services for academic users in Sweden.

UPPMAX - Uppsala Multidisciplinary Center for Advanced Computational Science, HPC computing rescource for Swedish scientists. Apply for free computing projects via NAISS.

Microsoft Azure - SLU has an agreement with Microsoft Azure for cloud computing (including price discounts). You can get more information by contacting the SLU IT-support.

SLU support

Center for Statistics - a joint platform for statisticians at SLU to enable exchange of knowledge and to be a resource for the entire university by organizing workshops and providing statistical advice and support for all employees at SLU.

Data Management Support - assists SLU employees with data management - from planning, including data management plans, to publishing, long-term preservation, archiving and the reuse of research and environmental assessment data.

UPSC Bioinformatics Facility - centralises bioinformatics competences in Umeå, offering a range of bioinformatics services as well as local bioinformatics training, international workshops and training programs.

Sequencing Resources

National Genomics Infrastructure - NGI Uppsala offers next generation sequencing (NGS) and genotyping services of high quality using the latest technologies to academic researchers in Sweden and abroad.

SNP&SEQ - Part of NGI Sweden, hosted by SciLifeLab, offers genotyping and next generation sequencing services to academic researchers in Sweden.

Uppsala Genome Center - Part of NGI Sweden, hosted by SciLifeLab, provides long read sequencing services, from i.e. PacBio, Ion, Oxford Nanopore.