nf-core is by design a collaborative effort, and would not exist if it were not for the efforts of many dedicated contributors.
The nf-core pipelines and community is driven by many individuals, listed below. This list updates automatically.
Want to see who's working on what? See the contributor leaderboard on the Statistics page.
Some of the organisations running nf-core pipelines are listed below, along with a key person who you can contact for advice.
Is your group missing? Please submit a pull request to add yourself! It's just a few lines in a simple YAML file..
The Quantitative Biology Center provides a one-stop-shop for access to high-throughput technologies in the life sciences and the required bioinformatics analysis. As a bioinformatics core facility, we provide advanced data analysis techniques.
Improving the health and quality of life of humans and animals is the goal of the research-driven pharmaceutical company Boehringer Ingelheim. The focus in doing so is on diseases for which no satisfactory treatment option exists to date. The company therefore concentrates on developing innovative therapies that can extend patients’ lives. In animal health, Boehringer Ingelheim stands for advanced prevention.
The Wellcome Sanger Institute is one of the premier centres of genomic discovery and understanding in the world. It leads ambitious collaborations across the globe to provide the foundations for further research and transformative healthcare innovations.
The Beatson Institute is one of Cancer Research UK’s core-funded institutes. They have built an excellent reputation for basic cancer research, including world-class metabolism studies and renowned in vivo modelling of tumour growth and metastasis.
The International Agency for Research on Cancer is the specialized cancer agency of the World Health Organization. The objective of the IARC is to promote international collaboration in cancer research.
The BioFrontiers Institute at the University of Colorado (CU) is an interdisciplinary hub for bioscience research and education with a focus on improving human health.
The Gregor Mendel Institute of Molecular Plant Biology, an Institute of the Austrian Academy of Sciences, is dedicated to basic research in diverse aspects of plant molecular biology.
IISER Mohali is an autonomous academic and research institution at Mohali, Punjab, India.
The Max Planck Institute for the Science of Human History (MPI-SHH) in Jena was founded in 2014 to target fundamental questions of human history and evolution since the Paleolithic.
Founded in 1831, New York University is now one of the largest private universities in the United States. Of the more than 3,000 colleges and universities in America, New York University is one of only 60 member institutions of the distinguished Association of American Universities.
The Institut Curie is a private nonprofit organization created in 1909 which combines a leading European cancer research center with a hospital group. The Institut Curie Bioinformatics platform is composed of biostatisticians and software engineers who offer a multidisciplinary expertise to support the biotechnological platforms, the research units and the hospital in their daily activities.
CZ Biohub is an independent, non-profit medical research organization working in collaboration with UC San Francisco, Stanford University and UC Berkeley. Our vision is to develop and apply technologies that will enable doctors to cure, prevent or manage all diseases during our children’s lifetime.
To build on the track record set by India in general and Bangalore in particular, to enable India to play a key role in the global IT scenario through a world class institute with a focus on education and research, entrepreneurship and innovation.
The research that is carried out at the Linnaeus University Centre for Ecology and Evolution in Microbial model Systems (EEMiS) is focused on marine environments in the Baltic Sea – on the border between sea and land, in coastal waters and in the open sea.
The MethylGrammar Lab at the Hebrew University School of Medicine is developing tools for analyzing bisulfite sequencing and other epigenomic sequencing methods. We are interested in epigenomic biomarkers of disease, especially DNA methylation.
Analytical and Biological Sciences
The National Institute for Biological Standards and Control (NIBSC) plays a leading national and international role in assuring the quality of biological medicines and diagnostics.
Ardigen is harnessing advanced Artificial Intelligence methods for novel precision medicine. We accelerate therapy development by decoding microbiome, designing immunity and providing digital drug discovery services. We are rooted in biology and hold deep expertise in bioinformatics, machine learning and software engineering.
The UCL Cancer Institute is the hub for cancer research at University College London, one of the World's leading universities. The Institute draws together over 400 talented scientists who are working together to translate research discoveries into developing kinder, more effective therapies for cancer patients.
Flomics Biotech is developing cell-free RNA liquid biopsies for early detection of complex diseases. We combine optimized molecular biology protocols with machine learning algorithms to obtain accurate, reproducible and meaningful results that can be easily implemented in the clinical practice.
The MRC Human Genetics Unit discovers how changes in our DNA impact our lives. We combine the latest computational and experimental technologies to investigate how our genomes work to control the function of molecules, cells and tissues in people and populations.
The DRESDEN-concept Genome Center is a German competence center for next generation sequencing. We offer services for data generation and bioinformatics in the areas of single cell applications, various short read sequencing applications, and long read genome sequencing and assembly.
A number of large projects are committing to working with the nf-core community for data analysis pipelines. You can see an overview of these below.
The German Funding Body (DFG) has approved funding to establish 4 national high-throughput sequencing centers in Germany. The project will rely on nf-core pipelines for analyzing large-scale genomics data. Contributors from the Kiel, Tübingen and Dresden sites are already actively contributing to nf-core, and the other sequencing center in Cologne/Bonn (West German Genome Center) has committed to joining and contributing its expertise.
EASI-Genomics provides easy and seamless access to cutting-edge DNA sequencing technologies to researchers from academia and industry, within a framework that ensures compliance with ethical and legal requirements, as well as FAIR and secure data management. EASI-Genomics aims to build a community of practice, which leverages advanced sequencing technologies beyond country and sector borders to tackle global challenges in science. It organizes competitive calls to get fully-funded access to state-of-the-art facilities and services, including integrative data analysis.
EASI-Genomics partners are committed to working within community best-practices for the bioinformatics processing of the data that they produce. To this end they will use nf-core pipelines to process data and contribute new developments and pipelines within the nf-core framework.
BovReg is a H2020 project to form a consortium that will provide a comprehensive map of functionally active genomic features in cattle and how their (epi)genetic variation in beef and dairy breeds translates into phenotypes.
BovReg reference bioinformatics pipelines will adhere to nf-core guidelines in order to deliver reproducible data analyses to the community.
Dockstore is a platform used by researchers across the world to share reproducible computational analyses and hosts hundreds of individual tools and workflows created by more than a hundred different contributors.
By using lightweight containerization technology along with the essential metadata needed for combining tools into scientific analysis "recipes", Dockstore allows users to create, share, publish (using citable DOIs) and reproducibly reuse these recipes across platforms and compute environments.
It is workflow system agnostic, supports a repository of workflows in native and standardised form and the virtual aggregation of established tool, workflow and registries to support discovery over a fragmented ecosystem. The federated registry will support a common API to simplify access for tool developers.
Just tested https://t.co/wERtIS7xPp with bacterial WGS data. It was very easy to work with. I am very impressed by nf-core! Great community and very important project to promote #reproducibility in #bioinformatics analyses. @alex_peltzer @aka_hpatel— Rodrigo O. Polo (@ropolo) August 6, 2019
Literally everyone should know about that! @nextflowio Harshil Patel from Francis Crick Institute pitches good practice, hydrating and having these cool stickers on his laptop #bioinfocore #ISMBECCB https://t.co/tkIgAWfeYZ pic.twitter.com/pOHNcFh3Yp— Daniel Stekhoven (@DanStekhoven) July 22, 2019
Many useful and well-documented bioinformatics pipelines by the @nf_core team, from RNA-seq, methylation, to this differential ATAC-seq. More in development, https://t.co/SvAJjIJqHD https://t.co/TCsBWlJyeC— Mikhail Dozmorov (@mikhaildozmorov) April 11, 2019
My definition of joy:— Paolo Di Tommaso (@PaoloDiTommaso) December 14, 2018
1) Pick a random @nf_core pipeline
2) Launch `nextflow run <name> -profile docker,test`
3) Feel proud of that.