nf-core/configs

Browse the 298 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.

General configs
NameDescription ExecutorPipeline Configs
abims
The ABiMS cluster profileslurm
adcra
CRA HPC profileslurm
alice
Profile for use on Academic Leiden Interdisciplinary Cluster Environment (ALICE).slurm
apollo
COH Apollo cluster profile.slurm
arcc
Advanced Research Computing Center (ARCC) for the University of Wyomingslurm
aws_tower
AWS Batch with Tower Profileawsbatchdemultiplex
awsbatch
AWSBATCH Cloud Profileawsbatch
azurebatch
Azure BATCH Cloud Profileazurebatchrnaseqsarek
azurebatchdev
Azure BATCH Dev Cloud Profileazurebatch
bi
Boehringer Ingelheim internal profile.ampliseq
bigpurple
 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
bih
Berlin Institute of Health HPC cluster profile.slurm
binac
BinAC cluster profile.pbsampliseq
biohpc_gen
BioHPC Genomics (biohpc_gen) cluster profileslurm
biowulf
Biowulf nf-core configslurm
bluebear
BlueBEAR cluster profileslurm
cambridge
Cambridge HPC cluster profile.slurm
cbe
CLIP BATCH ENVIRONMENT (CBE) cluster profileslurm
ccga_dx
CCGA DX cluster profile.slurm
ccga_med
CCGA Med cluster profile.slurm
ceci_dragon2
CÉCI Dragon2 cluster profiles provided by the GIGA Bioinformatics Team.slurm
ceci_nic5
CÉCI NIC5 cluster profiles provided by the GIGA Bioinformatics Team.slurm
cedars
Cedars-Sinai Medical Center HPC Profilesge
ceres
USDA ARS SCINet Ceres Cluster profileslurm
cfc
QBiC Core Facility cluster profile.slurmsarek
cfc_dev
QBiC Core Facility cluster dev profile without container cache.slurm
cheaha
University of Alabama at Birmingham Cheaha HPCslurm
computerome
Computerome 2.0 cluster profile.pbs
create
e-Research Kings College London CREATE HPCslurmpipelinepipeline
crg
Centre for Genomic Regulation (CRG) cluster profileslurmmultiplesequencealignproteinfold
crick
The Francis Crick Institute NEMO HPC cluster profile.slurmeager
crukmi
Cancer Research UK Manchester Institute HPC cluster profileslurm
csiro_petrichor
CSIRO Petrichor HPC profileslurm
czbiohub_aws
Chan Zuckerberg Biohub AWS Batch profile.awsbatch
daisybio
DaiSyBio cluster profile.slurm
denbi_qbic
de.NBI cluster profile.pbs
dkfz
Deutsches Krebsforschungszentrum (DKFZ) HPC cluster profilelsf
ebc
Generic Estonian Biocentre profile.slurm
ebi_codon
The European Bioinformatics Institute HPC cluster (codon) profilelsf
ebi_codon_slurm
The European Bioinformatics Institute HPC cluster (codon) profile for the SLURM login nodesslurm
eddie
University of Edinburgh (eddie) cluster profile.sgernaseqsarekviralrecon
einstein
Novo Nordisks Einstein cluster profileslurm
embl_hd
The EMBL Heidelberg HPC cluster profileslurm
engaging
MIT Engaging HPC cluster profile.slurmmag
ethz_euler
ETH Zurich Euler cluster profile --slurm
eva
Generic MPI-EVA cluster(s) profile.sgeeagermagsarektaxprofilerpipeline
fgcz
FGCZ ETH/UZHslurm
fub_curta
Freie Universität Berlin HPC (Curta) profileslurmmethylseq
genotoul
The Genotoul cluster profileslurm
genouest
The GenOuest cluster profileslurm
giga
GIGA cluster profile provided by the GIGA Bioinformatics Team.slurm
gis
Genome Institute of Singapore (Aquila) cluster profile.sge
google
Google Cloud Life Sciences Profilegoogle-lifesciences
hasta
Hasta, a local cluster setup at Clinical Genomics, Stockholm.slurmrnafusiontaxprofiler
hki
HKI clusters profile.localfuncscan
hypatia
Universidad de los Andes cluster profile.slurm
icr_alma
Nextflow nf-core profile for ICR alma HPCslurm
icr_davros
Nextflow nf-core profile for ICR davros HPCLSFsarek
ifb_core
The IFB core cluster profileslurm
ilifu
 Ilifu (https://ilifu.ac.za) slurm cluster profile. slurm
imb
Institute of Molecular Biology (IMB) HPC cluster profileslurm
imperial
Imperial College London - HPC Profile --.pbsproscflow
incliva
INCLIVA Health Research Institute profile for nf-core.local
ipop_up
iPOP-UP cluster profile, Université paris Citéslurm
janelia
IBM Platform LSF Cluster at Janelia Research Campuslsf
jax
The Jackson Laboratory Sumner HPC profile.slurm
jex
Nextflow config file for the MRC LMS Jex clusterslurm
kaust
Profile for use on King Abdullah Univesity of Science and Technology (KAUST) Ibex Cluster.slurmmagrnaseq
ki_luria
KI at MIT Luria HPC cluster profile.slurm
ku_sund_danhead
danhead01fl configurationslurmmethylseq
leicester
ALICE and SPECTRE cluster profile.slurm
lugh
National University of Ireland, Galway Lugh cluster profileslurm
m3c
The M3 Research Center HPC cluster profileslurm
maestro
Institut Pasteur Maestro cluster profileslurmeager
mana
University of Hawaii at Manoaslurm
marjorie
Novo Nordisks Marjorie cluster profileslurm
marvin
Config file for Marvin Cluster (UPF-CSIC), based on nf-core/configsslurm
mccleary
McCleary Cluster at Yaleslurm
medair
Cluster profile for medair (local cluster of Clinical Genomics Gothenburg)sge
mjolnir_globe
Section for Hologenomics and Section for Molecular Ecology and Evolution @ Globe Institute, University of Copenhagen - mjolnir_globe profile.slurm
mpcdf
MPCDF HPC profiles (unoffically).slurm
mpcdf_viper
MPCDF Viper HPC profiles (unoffically).slurm
munin
MUNIN profilelocalrnafusionrnavarsarek
nci_gadi
NCI Gadi HPC profilepbsproproteinfold
nu_genomics
Northwestern University Quest HPC (Genomics Nodes) configslurm
nygc
New York Genome Center (NYGC) cluster profile.slurm
nyu_hpc
New York University HPC profile.slurm
oist
The Okinawa Institute of Science and Technology Graduate University (OIST) HPC cluster profile.slurm
pasteur
The Institut Pasteur HPC cluster profileslurm
pawsey_nimbus
Pawsey Nimbus cloud profile
pawsey_setonix
Pawsey Setonix HPC profileslurm
pdc_kth
PDC profile.slurm
pe2
New York Genome Center (NYGC) cluster profile.slurm
psmn
PSMN (Pôle Scientifique de Modélisation Numérique) HPC cluster profileslurm
qmul_apocrita
Queen Mary Universtiy of Londonsge
rosalind
Kings College London Rosalind HPCslurm
rosalind_uge
Rosalind UGE config filesge
roslin
University of Edinburgh (Eddie) cluster profile for Roslin Institute.sge
sage
The Sage Bionetworks Nextflow Config Profile
sahmri
South Australian Health and Medical Research Institute (SAHMRI) HPC cluster profile.slurm
sanger
The Wellcome Sanger Institute HPC cluster (${clustername}) profilelsf
scw
Super Computing Walesslurm
seadragon
University of Texas at MD Anderson HPC cluster profilelsf // Use LSF executor
seattlechildrens
The SCRI (seattle childrens research institute) cluster profileslurm
seawulf
Stony Brook Universitys seaWulf cluster profile.slurm
seg_globe
Section for Evolutionary Genomics @ GLOBE, University of Copenhagen - seg_globe profile.slurm
self_hosted_runner
Profile for nf-cores self-hosted runners.
shu_bmrc
Sheffield Hallam Universty - BMRC HPCslurm
software_license
Software license set up for nf-core by nf-core/configs
stjude
St. Jude Childrens Research Hospital HPC cluster (HPCF) profilelsf
tes
GA4GH TES Profiletespipeline
tigem
Telethon Institute of Genetic and Medicine (TIGEM).slurm
tubingen_apg
Generic profile for APG group of University of Tuebingen.slurm
tufts
The Tufts University HPC cluster profile.slurm
tuos_stanage
Sheffield Bioinformatics Core - Stanageslurm
ucd_sonic
University College Dublin Sonic HPC profile.slurm
ucl_cscluster
University College London CS clustersge
ucl_myriad
University College London Myriad clustersge
uct_hpc
University of Cape Town High Performance Cluster config file.slurm
uge
Univa Grid Engine config filesge
unc_lccc
The Lineberger Comprehensive Cancer Center at the University of North Carolina at Chapel Hillslurm
unc_longleaf
BARC nf-core profile for UNCs Longleaf HPC.slurmcutandrun
unibe_ibu
University of Bern, Interfaculty Bioinformatics Unit cluster profileslurm
unity
Unity HPC cluster profile.slurm
unsw_katana
UNSW Katana HPC profile.pbsproproteinfold
uod_hpc
University of Dundee Compute Clustersge
uppmax
UPPMAX (Bianca) cluster profile.slurmampliseqsarek
utd_ganymede
University of Texas at Dallas HPC cluster profileslurm
uw_hyak_pedslabs
UW Hyak Pedslabs cluster profile.slurm
uzh
UZH science cloud profileslurm
uzl_omics
University of Luebeck, OMICS cluster profile.slurm
vai
Van Andel Institute HPC profile.slurm
vsc_calcua
Zen2 profile for use on the Vaughan cluster of the CalcUA VSC HPC.
vsc_kul_uhasselt
genius profile for use on the genius cluster of the VSC HPC.slurm
vsc_ugent
Configuration profile for execution of Nextflow pipelines on the VSC UGhent HPC.slurm
wcm
Weill Cornell Medicine, Scientific Computing Unit Slurm cluster profileslurm
wehi
Walter and Eliza Hall Institute (WEHI) Milton HPC cluster profileslurm
wustl_htcf
 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
xanadu
The UConn HPC profileslurm
york_viking
The University of York Viking profile slurm