nf-core/configs

Browse the 125 configs that are currently available as part of nf-core.

The following configs are common Nextflow pipeline configurations and options for particular institutional clusters or compute environments.

Name Description Executor
The ABiMS cluster profile slurm
CRA HPC profile slurm
Profile for use on Academic Leiden Interdisciplinary Cluster Environment (ALICE). slurm
COH Apollo cluster profile. slurm
Advanced Research Computing Center (ARCC) for the University of Wyoming slurm
AWS Batch with Tower Profile awsbatch
AWSBATCH Cloud Profile awsbatch
Azure BATCH Cloud Profile azurebatch
Azure BATCH Dev Cloud Profile azurebatch
Boehringer Ingelheim internal profile.
NYU School of Medicine BigPurple cluster profile. module load both singularity/3.1 and squashfs-tools/4.3 before running the pipeline with this profile!! Run from your scratch or lab directory - Nextflow makes a lot of files!! Also consider running the pipeline on a compute node (srun --pty /bin/bash -t=01:00:00) the first time, as it will be pulling the docker image, which will be converted into a singularity image, which is heavy on the login node and will take some time. Subsequent runs can be done on the login node, as the docker image will only be pulled and converted once. By default the images will be stored in $singularityDir slurm
Berlin Institute of Health HPC cluster profile. slurm
BINAC cluster profile. pbs
BioHPC Genomics (biohpc_gen) cluster profile slurm
Biowulf nf-core config slurm
Cambridge HPC cluster profile. slurm
CLIP BATCH ENVIRONMENT (CBE) cluster profile slurm
CCGA DX cluster profile. slurm
CCGA Med cluster profile. slurm
Cedars-Sinai Medical Center HPC Profile sge
USDA ARS SCINet Ceres Cluster profile slurm
QBiC Core Facility cluster profile. slurm
QBiC Core Facility cluster dev profile without container cache. slurm
University of Alabama at Birmingham Cheaha HPC slurm
Computerome 2.0 cluster profile. pbs
e-Research Kings College London CREATE HPC slurm
Centre for Genomic Regulation (CRG) cluster profile crg
The Francis Crick Institute NEMO HPC cluster profile. slurm
Cancer Research UK Manchester Institute HPC cluster profile slurm
CSIRO Petrichor HPC profile slurm
Chan Zuckerberg Biohub AWS Batch profile. awsbatch
DaiSyBio cluster profile. slurm
de.NBI cluster profile. pbs
Deutsches Krebsforschungszentrum (DKFZ) HPC cluster profile lsf
Generic Estonian Biocentre profile. slurm
The European Bioinformatics Institute HPC cluster (codon) profile lsf
The European Bioinformatics Institute HPC cluster (codon) profile for the SLURM login nodes slurm
University of Edinburgh (eddie) cluster profile. sge
Novo Nordisks Einstein cluster profile slurm
MIT Engaging HPC cluster profile. slurm
ETH Zurich Euler cluster profile -- slurm
Generic MPI-EVA cluster(s) profile. sge
FGCZ ETH/UZH slurm
Freie Universität Berlin HPC (Curta) profile slurm
The Genotoul cluster profile slurm
The GenOuest cluster profile slurm
Genome Institute of Singapore (Aquila) cluster profile. sge
Google Cloud Life Sciences Profile google-lifesciences
Hasta, a local cluster setup at Clinical Genomics, Stockholm. slurm
HKI clusters profile. local
Universidad de los Andes cluster profile. slurm
Nextflow nf-core profile for ICR davros HPC LSF
The IFB core cluster profile slurm
Ilifu (https://ilifu.ac.za) slurm cluster profile. slurm
Institute of Molecular Biology (IMB) HPC cluster profile slurm
Imperial College London - HPC Profile --. pbspro
INCLIVA Health Research Institute profile for nf-core. local
iPOP-UP cluster profile, Université paris Cité slurm
IBM Platform LSF Cluster at Janelia Research Campus lsf
The Jackson Laboratory Sumner HPC profile. slurm
Nextflow config file for the MRC LMS Jex cluster slurm
dangpufl01 configuration slurm
ALICE and SPECTRE cluster profile. slurm
National University of Ireland, Galway Lugh cluster profile slurm
The M3 Research Center HPC cluster profile slurm
Institut Pasteur Maestro cluster profile slurm
University of Hawaii at Manoa slurm
Novo Nordisks Marjorie cluster profile slurm
Config file for Marvin Cluster (UPF-CSIC), based on nf-core/configs slurm
McCleary Cluster at Yale slurm
Cluster profile for medair (local cluster of Clinical Genomics Gothenburg) sge
Section for Hologenomics and Section for Molecular Ecology and Evolution @ Globe Institute, University of Copenhagen - mjolnir_globe profile. slurm
MPCDF HPC profiles (unoffically). slurm
MUNIN profile local
NCI Gadi HPC profile pbspro
Northwestern University Quest HPC (Genomics Nodes) config slurm
New York Genome Center (NYGC) cluster profile. slurm
New York University HPC profile. slurm
The Okinawa Institute of Science and Technology Graduate University (OIST) HPC cluster profile. slurm
The Institut Pasteur HPC cluster profile slurm
Pawsey Nimbus cloud profile
Pawsey Setonix HPC profile slurm
PDC profile. slurm
PSMN (Pôle Scientifique de Modélisation Numérique) HPC cluster profile slurm
Queen Mary Universtiy of London sge
Kings College London Rosalind HPC slurm
Rosalind UGE config file sge
The Sage Bionetworks Nextflow Config Profile
South Australian Health and Medical Research Institute (SAHMRI) HPC cluster profile. slurm
The Wellcome Sanger Institute HPC cluster (${clustername}) profile lsf
Super Computing Wales slurm
The SCRI (seattle childrens research institute) cluster profile local
Stony Brook Universitys seaWulf cluster profile. slurm
Section for Evolutionary Genomics @ GLOBE, University of Copenhagen - seg_globe profile. slurm
Profile for nf-cores self-hosted runners.
Software license set up for nf-core by nf-core/configs
Telethon Institute of Genetic and Medicine (TIGEM). slurm
Generic profile for APG group of University of Tuebingen. slurm
The Tufts University HPC cluster profile. slurm
Sheffield Bioinformatics Core - Stanage slurm
University College Dublin Sonic HPC profile. slurm
University College London CS cluster sge
University College London Myriad cluster sge
University of Cape Town High Performance Cluster config file. slurm
Univa Grid Engine config file sge
The Lineberger Comprehensive Cancer Center at the University of North Carolina at Chapel Hill slurm
BARC nf-core profile for UNCs Longleaf HPC. slurm
University of Bern, Interfaculty Bioinformatics Unit cluster profile slurm
University of Dundee Compute Cluster sge
UPPMAX (Bianca) cluster profile. slurm
University of Texas at Dallas HTC cluster profile slurm
University of Texas at Dallas HPC cluster profile slurm
University of Texas at Dallas HPC cluster profile slurm
UW Hyak Pedslabs cluster profile. slurm
UZH science cloud profile slurm
University of Luebeck, OMICS cluster profile. slurm
Van Andel Institute HPC profile. slurm
Slurm profile with automatic partition selection for use on the CalcUA VSC HPC. slurm
HPC_GENIUS profile for use on the genius cluster of the VSC HPC. slurm
HPC_SKITTY profile for use on the Skitty cluster of the VSC HPC. slurm
Weill Cornell Medicine, Scientific Computing Unit Slurm cluster profile slurm
Walter and Eliza Hall Institute (WEHI) Milton HPC cluster profile slurm
WUSTL High Throughput Computing Facility cluster profile. Run from your scratch directory, the output files may be large! Please consider running the pipeline on a compute node the first time, as it will be pulling the docker image, which will be converted into a singularity image, which is heavy on the login node. Subsequent runs can be done on the login node, as the docker image will only be pulled and converted once. By default, the images will be stored in $singularityDir slurm
The UConn HPC profile slurm
The University of York Viking profile slurm