'#8' by James Sarek nf-core/bytesize: nf-core/cutandrun
This week, José Fernandez will present the nf-core/sarek pipeline in a very special episode of nf-core/bytesize talks focused on This week, Maxime Garcia (@gau) will present Running pipelines offline. This will cover: - Using nf-core tools to download a Nextflow Summit Boston 2023 - Eleanor Karp-Tatham
nf-core/sarek is a workflow designed to detect variants on whole genome or targeted sequencing data. Initially designed for Human, and Mouse. This week, Payam Emami will present the nf-core/metaboigniter pipeline in a special edition of nf-core/bytesize focussed on
nf-core/hackathon March 2023: Welcome & Introduction How nf-core configs work (nf-core/bytesize #2) nf-core/rnaseq (nf-core/bytesize #32)
I have downloaded sarek latest version using nf-core tools, with all singularity containers (in theory). When I move the pipeline to the cluster (no internet Nextflow 기초실습 및 nf-core/sarek 소개
nf-core/bytesize: nf-core/nanoseq nf-core/sarek: A workflow for germline, tumor-only, and somatic analysis of NGS data. Friederike Hanssen, Ph.D. Student at the
This week, Harshil Patel will present the nf-core/rnaseq pipeline in a special edition of nf-core/bytesize focussed on pipelines Welcome to the March 2023 nf-core hackathon! This video kicks off the event and explains how to get started 00:00 Welcome
Using the nf-core/sarek and nf-core/methylseq pipelines to analyse large clinical trial datasets. Eleanor Karp-Tatham, Postdoctoral nf-core/sarek is a pipeline designed to detect variants on whole genome or targeted sequencing data. Initially designed for Human, and Mouse.
Nextflow and nf-core Online Community Training - Session 4 (English) Session 4: March 16, 2023 - Configuration - Deployment Unable to start · Issue #1725 · nf-core/sarek
Nextflow Summit Boston 2023 - Maxime Garcia @Nextflow / @nf-core 2022 Training - Day 1 (Europe, the Middle East, and Africa)
Nextflow and nf-core Online Community Training - Session 3 (English) Famke Bäuerle: Contributing to nf-core within a translational project for personalized Nextflow and nf-core Hands-on Training
In this video, we explore a catalog of best-practice bioinformatic pipelines written in Nextflow available from the nf-core community Master Nextflow and nf-core installation in just a few minutes! This tutorial walks you through the complete setup process for Contributing to nf-core within a translational project for personalized cancer medicine in Germany Famke Bäuerle - PhD Student,
containers missing in nf-core download · Issue #769 · nf-core/sarek @Nextflow / @nf-core 2022 Training - Day 1 (Asia-Pacific) This week, Daniel Straub will present the nf-core/ampliseq pipeline in a special edition of nf-core/bytesize focussed on pipelines.
Adapting nf-core/sarek for Ion Torrent Single-End Data Analysis The nf-core Request for Comment (RFC) process is designed to give the community a voice and visibility to large projects that
nf-core/coproid (nf-core/bytesize #29) nf-core/sarek - Reproducible Bioinformatics Workflows with Nextflow
nf-core/sarek: a pipeline for efficient germline - Friederike Hanssen - Poster - ISMB/ECCB 2023 This week, Maxime Garcia (@MaxUlysse) will present: How nf-core configs work. This talk will cover: * Making your own Nextflow nf-core/sarek: Analysis pipeline to detect germline or - GitHub
nf-core/bytesize: Using nf-core configs in custom pipelines nf-core/bytesize: gitpod.io nf-core tools & guidelines - Phil Ewels
Tutorial: running pipelines - Friederike Hanssen Nextflow and nf-core Online Community Training - Session 1 Session 1: March 13, 2023 - Welcome - An introduction to Nextflow nf-core/sarek (nf-core/bytesize #28)
This week, Gisela Gabernet (@ggabernet) will present: Pipeline code structure walkthrough. This talk will cover: * Talk through the nf-core/sarek is a workflow designed to detect variants on whole genome or targeted sequencing data. Initially designed for Human, and Mouse, it can work on any
Franziska Bonath shares her experiences as a beginner of using nf-core provided material and will give tips on how to get started. nf-core/sarek - evolution of a community pipeline started in 2016 Maxime Garcia, Bioinformatician at Seqera. From the
nf-core/metaboigniter (nf-core/bytesize #26) This week, Evan Floden will present the Nextflow Tower CLI during as part of the nf-core/bytesize series. nf-core presents bytesize This week, Friederike Hanssen (@FriederikeHanssen) presents how to use modules in a pipeline. This will cover: * Module file
nf-core/sarek: a comprehensive & efficient somatic & germline variant calling workflow. Friederike Hanssen, PhD candidate at the This week, Maxime Borry will present the nf-core/coproid pipeline in a special pipeline focused- episode on nf-core/bytesize Chris Hakkaart shows how custom scripts, such as R or Perl o Python scripts, can be integrated into a Nextflow pipeline.
Gisela Gabernet talks about the newest developments in the nf-core/airrflow pipeline. nf-core/airrflow is a bioinformatics This week, Gisela Gabernet will present Tuning pipeline performance. This will cover: - Analysis of computational resource usage
nf-core pipelines - Harshil Patel (Day 3_1) '#23' written and performed by James Sarek Filmed by Roger Allen, Marcel Glover, Tamara Draycott, Gavin Radcliffe Special Harshil Patel (@drpatelh) presents a Pipeline Code Structure walk through for the new DSL2 template. Find out more at
Episode 40: Origins of nf-core - SciLifeLab NGI Sarek is a workflow designed to detect variants on whole genome or targeted sequencing data. Initially designed for Human, and Mouse, it can work on any species
Featured nf-core pipelines: Sarek - Maxime Garcia Annick Renevey is explaining the nf-core/rnafusion pipeline in this weeks bytesize talk. Find out more at nf core bytesize rfcs
Yuk Kei Wan is talking about the functions of the nf-core/nanoseq pipeline. More information about the pipeline can be found nf-core/sarek is an established, comprehensive variant calling pipeline in the genomics field, which can be applied to any organism for which a reference genome
Slurm crashes e.g. FASTP without informative error · Issue #1600 · nf nf-core/bytesize: nf-core/rnafusion (2022-09-13) Live stream of Nextflow and nf-core training. Please post questions on Slack:
One of our first bytesize talks described the use of nf-core configs in the context of nf-core pipelines. In an extension to this Nextflow community meeting in South Korea (2nd) 세션 내용 [실습] Nextflow 기초 트레이닝 (핸즈온 세션) [이론] Sarek 워크플로우 nf-core/sarek: a pipeline for efficient germline, tumor-only, and somatic analysis of NGS data on different compute infrastructures
nf-core/bytesize: Special Interest Group - Animal Genomics How to use modules in a pipeline (nf-core/bytesize #6a)
@Nextflow / @nf-core 2022 Training - Day 1 (North, Central and South America) nf-core/bytesize: DSL2 coding style recommendations Part 1
Normalization methods for single-cell RNA-Seq data (high-level overview) Nextflow Tower CLI (nf-core/bytesize #33)
'#8' written and performed by James Sarek Filmed by Roger Allen, Marcel Glover, Tamara Draycott, Gavin Radcliffe Special Nextflow Summit 2022 - Friederike Hanssen
Nextflow Summit 2023 - Friederike Hanssen Nextflow and nf-core Online Community Training - Session 3 (English) Session 3: March 15, 2023 - Managing dependencies and
In this week's bytesize, Cedric Notredame, Björn Lange, Francesca Bernini and Jose Espinosa-Carrasco are introducing the In this video, I provide a high-level overview over different scRNA-Seq normalization methods. In particular, I discuss the Featured nf-core pipelines: viralrecon - Harshil Patel
Chris Wyatt shows us how to use GitPod ( for testing, development, and training. Here are some of the links and First of all, congrats and thanks for your work. I am new to the Nextflow/nf-core field and I am trying to run the pipeline
Nextflow and nf-core Hands-on Training A fast way to get up and running with Nextflow with hands-on training that is light on Scalable and efficient DNA sequencing analysis on different Day 3 - session 1 Talk: nf-core pipelines - Harshil Patel | The Francis Crick Institute.
Pipeline code walkthrough (nf-core/bytesize #3) Nextflow and nf-core Online Community Training - Session 4 (English)
Nextflow Tutorial #4: Exploring nf-core pipelines I'm attempting to utilize the Sarek pipeline for analyzing Ion Torrent data, but I'm facing challenges with configuring single-end files. Command used and terminal output. $ nextflow run nf-core/sarek -r 3.4.2 -profile slurm,singularity --outdir sarek_GATK_hg38_output/ --input
sarek: Introduction Join us to hear Phil Ewels ( chat with Maxime Garcia ( and Franziska Bonath
DSL2: Pipeline Structure Walkthrough - Harshil Patel '#23' by James Sarek Buckle your seatbelts! We get to hear about the brand-new and shiny subworkflows that were introduced after the hackathon in
sarek » nf-core Running pipelines offline (nf-core/bytesize #8)
Maxime Garcia talks about what to pay attention to when coding with DSL2. nf-core/bytesize: nf-core/airrflow
Find out more at Tutorial: Running pipelines: nf-core/ampliseq (nf-core/bytesize #25) Find out more at
Tuning pipeline performance (nf-core/bytesize #13) Nextflow & nf-core Installation Made Easy!
Nextflow & nf-core Online Community Training - Session 1 (English) nf-core/bytesize: nf-core Subworkflows
nf-core/bytesize: integrate custom scripts in Nextflow pipelines nfcore/sarek - Docker Image
nf-core/bytesize: A beginners guide to nf-core