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DTSTAMP:20260615T023308Z
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DTSTART:20211129T090000Z
DTEND:20211201T160000Z
DESCRIPTION:Reproducibility is a cornerstone of good scientific practice. T
 hanks to funding provided by ELIXIR Training Platform Task 2\, we have bro
 ught together the biggest names in bioinformatics workflow management for 
 a 3 day practical workshop. We have presentations from the development tea
 ms of CWL\, Snakemake\, Nextflow\, nf-core and more. If you want to learn 
 more about the workflow management concepts that will be addressed in this
  workshop\, check out these articles:\n - [Workflow systems turn raw data 
 into scientific knowledge](https://doi.org/10.1038/d41586-019-02619-z)\n -
  [Methods Included: Standardizing Computational Reuse and Portability with
  the Common Workflow Language](https://arxiv.org/abs/2105.07028)\n - [Sust
 ainable data analysis with Snakemake](https://f1000research.com/articles/1
 0-33/v1)\n - [Nextflow enables reproducible computational workflows](https
 ://doi.org/10.1038/nbt.3820)\n - [The nf-core framework for community-cura
 ted bioinformatics pipelines](https://doi.org/10.1038/s41587-020-0439-x)\n
  - [Lessons Learned: Recommendations for Establishing Critical Periodic Sc
 ientific Benchmarking](https://doi.org/10.1101/181677)\n\n## Details\n\n**
 Organizers**: \n- [Naveed Ishaque\, *Berlin Institute of Health at Charit
 é University Hospital*](naveed.ishaque@charite.de)\n- Sina Barysch\, *EMB
 L*\n- Franziska Mueller\, *Berlin Institute of Health at Charité Universi
 ty Hospital*\n- Daniel Wibberg\, *CeBiTec\, Univerity of Bielefeld*\n\n**T
 arget audience:** PhD/postdoc-level bioinformaticians familiar with omics 
 analysis and scripting in python/R. You should already be familiar with so
 me data analysis workflows and ready to take your first steps in trying ou
 t a modern workflow management tool.\n\n**Places:** 30 attendees - apply s
 oon to avoid disappointment!\n\n**Location: virtual via Zoom**. The practi
 cal sessions will require use of your own laptop\, HPC etc. Please note th
 at you will be expected to set up software environments for the practical 
 sessions before hand. Details on how to do this will be provided in due co
 urse.\n\n**Dates:** Monday 29th November – Wednesday 1st December.\n\n**
 Contact: for more information email Naveed Ishaque\, [naveed.ishaque@bih-c
 harite.de](naveed.ishaque@bih-charite.de)**\n\n## Registration ##\n\nPleas
 e register via [surveymonkey](https://www.surveymonkey.de/r/GSSG3YY)\n\n![
 qr](https://user-images.githubusercontent.com/92855176/138662567-2dc6d014-
 32dd-409f-b760-ad5ad0486ced.png)\n\n## Provisional Schedule\n\n### Day 1: 
 Monday 29th November\n\n**09:30-12:00: opening remarks**\n - Naveed Ishaqu
 e\n\n**09:30-12:00: CWL**\n - Michael R. Crusoe\, *Vrije Universiteit Amst
 erdam (VU Amsterdam)\, Netherlands*\n - Celia van Gelder\, *Dutch Techcent
 re for Life Sciences\, Netherlands*\n - Fotis E. Psomopoulos\, *Centre for
  Research and Technology Hellas\, Greece*\n\nLink to material: coming soon
 ...\n\n**13:00-14:00: workflUX - The Workflow User eXperience**\n - Pavlo 
 Lutsik\, *German Cancer Research Centre\, Germany*\n - Mei-Ju Chen\, *Germ
 an Cancer Research Centre\, Germany*\n - Clarissa Feuerstein\, *German Can
 cer Research Centre\, Germany*\n\nLink to material: coming soon...\n\n**14
 :00-15:00: WESkit: GA4GH-compliant workflow execution for stability and pr
 oduction**\n - Sven Twardziok\, *Berlin Institute of Health at Charité Un
 iversity Hospital\, Germany*\n\nLink to material: coming soon...\n\n### Da
 y 2: Tuesday 30th Nov\n\n**09:30-12:00: Snakemake**\n- Johannes Köster\, 
 *University of Duisberg and Essen\, Germany*\n\nLink to material: [https:/
 /snakemake.readthedocs.io/en/stable/tutorial/tutorial.html](https://snakem
 ake.readthedocs.io/en/stable/tutorial/tutorial.html)\n\n**13:00-15:00: Ope
 nEBench**\n- Salvador Capella-Gutierrez\, *Barcelona Super Computing Centr
 e\, Spain*\n- Laura Portell\, *Barcelona Super Computing Centre\, Spain*\n
 - Asier Gonzalez\, *Barcelona Super Computing Centre\, Spain*\n\nLink to m
 aterial: coming soon...\n\n**Evening virtual social via gather.town - meet
  and discuss experiences with your peers and trainers while enjoying your 
 favourite food delivery service!**\n\n### Day 3\, Wednesday 1st Dec\n\n**0
 9:30-12:00: Nextflow**\n- Paolo Di Tommaso\, *Seqera Labs\, Spain*\n- Evan
  Floden\, *Seqera Labs\, Spain*\n- Luca Cozzuto\, *Centre for Genomics Reg
 ulation\, Spain*\n\nLink to material: coming soon...\n\n**13:00-15:00: nf-
 core**\n - Gisela Gabernet\, *University of Tübingen\, Germany*\n - Fried
 erike Hanssen\, *University of Tübingen\, Germany*\n\nLink to material: c
 oming soon...\n\n**15:00-15:15: closing remarks**\n\n\n## Registration ##\
 n\nPlease register via [surveymonkey](https://www.surveymonkey.de/r/GSSG3Y
 Y)\n\n![qr](https://user-images.githubusercontent.com/92855176/138662567-2
 dc6d014-32dd-409f-b760-ad5ad0486ced.png)\n\n## Poster\n\n![ElixirWorkflowW
 orkshop2021_v4_800px](https://user-images.githubusercontent.com/114547/138
 683706-16403def-5d8c-4b3e-ac3e-485cb452bd4b.png)\n\n**For more information
  email Naveed Ishaque\, [naveed.ishaque@bih-charite.de](naveed.ishaque@bih
 -charite.de)**
LOCATION:Virtual (Slack)
SUMMARY:Bioinformatics workflow management
URL;VALUE=URI:https://elixir-workflow-workshop.github.io/2021/
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