- Metabolomics - lists.galaxyproject.org

Enhancing metabolomics in Galaxy during CoFest
by Melanie Föll 18 Jun '21

18 Jun '21

Dear all, the Galaxy community conference is coming closer and so is the associated Collaboration Fest (CoFest). Everyone, please take this opportunity to send me names of software that you would like to have implemented in Galaxy or use cases for which you would like to have training materials. We will discuss all suggestions in our pre-meeting and then decide which of the suggestions we will work on during CoFest. Everyone is invited to join the pre-meeting either to make suggestions about CoFest topics or to learn more about how CoFest works and how one can contribute to it (no programming knowledge required): Thursday 1st July 12 pm CEST via Zoom: https://northeastern.zoom.us/j/99385202340?pwd=a0FWSW5XbVV6bkFrYXRoZDZOVjI5… Meeting-ID: 993 8520 2340 Kenncode: 283064 Cheers, Melanie

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Collaboration Fest - time to send your wishes!
by Melanie Föll 07 May '21

07 May '21

Dear Galaxy Metabolomics folks, As discussed in our last call, the GCC Collaboration Fest (CoFest) will take place on July 9 and 10, directly after the main Galaxy conference ( https://docs.google.com/document/d/1c0L4mc7s2JOx0uq6HGP3QE3V5Za20GfCh1e-KKb…). Participation is free, open to everyone and not coupled to conference registration, although there’s a spreadsheet available for you to sign up ( https://docs.google.com/spreadsheets/d/15TWgpszWEF_QHfWIG818UYJMagcRiio7Pck… ). This is a 2-day collaborative event where the Galaxy community gathers to contribute code, documentation, training materials, challenging analysis problems and use cases. It is open to everyone (regardless of background and skills) who is interested in learning and contributing within small teams on your topics of interest. It would be great if we could add 1-3 metabolomics related topics to the agenda :) ACTION! Deadline May 31th: 1. You are all welcome to send me suggestions of needed tools, workflows, training or other ideas on which we could work during CoFest, the more concrete the better. 2. Please let me know if you consider actively joining CoFest and would like to participate in a pre-CoFest meeting to select topics. I will collect all ideas (from 1) and then organize a meeting in June for everyone who considers joining the CoFest (from 2) to come up with a final list of metabolomics topics that will be added to the official CoFest agenda. Looking forward to a great CoFest, Melanie

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Webinar: Galaxy Resources for Tool Developers, 12 May
by Dave Clements 07 May '21

07 May '21

Hello All, A couple of things: 1. There is a webinar on Wednesday on Galaxy Resources for Tool Developers <https://galaxyproject.org/events/2021-05-gr4-tool-devs/>. 2. The deadline for submitting talk abstracts to GCC2021 has been pushed back to 17 May <https://galaxyproject.org/news/2021-05-gcc-extended/>. 3. If the expense of registering is an obstacle to you participating, then then you may be eligible for a fellowship. See here <https://galaxyproject.org/news/2021-05-gcc-jxtx/> and here <https://galaxyproject.org/news/2021-04-gcc-fellowships/>. Thanks, Dave C -- https://galaxyproject.org/

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Galaxy metabolomics call on May 6 - invitation
by Melanie Föll 06 May '21

06 May '21

Hi all, it's time for another Galaxy metabolomics call. Please join us on May 6, 2 pm CET via the zoom link below. We'll have a guest speaker: Amrita Cheema, Georgetown University School of Medicine in Washington DC will present "Radiometabolomics: Identification of Metabolic Predictors of Radiation Late Effects". Amrita is involved in the ABRF Metabolomics Research Group (https://www.abrf.org/metabolomics-mrg- ) and I hope we can discuss with her also about training and standardization in metabolomics. If time allows, I would like to discuss if there is interest in working on metabolomic tool(s) during the GCC hackathon. Suggestions for potential tools are more than welcome. Hope to see you all on Thursday. Best, Melanie Galaxy UniFreiburg is inviting you to a scheduled Zoom meeting. Topic: Metabolomics call Time: May 6, 2021 02:00 PM Amsterdam, Berlin, Rome, Stockholm, Vienna Join Zoom Meeting https://us02web.zoom.us/j/83058868819?pwd=djB0RWtwSXUzZjJvbk5wcGJoWktTUT09 Meeting ID: 830 5886 8819 Passcode: 720575

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Invitation to the Galaxy Metabolomics call on Thursday March 11
by Melanie Föll 09 Mar '21

09 Mar '21

Dear all, please find below the zoom link for the next Galaxy Metabolomics call on Thursday, March 11th at 2pm CET. Mélanie Petera will present "batch_correction, the story of a Galaxy module". I am very much looking forward to seeing you all on Thursday. Best wishes, Melanie p.s. The date for the next Metabolomics call will be changed due to a holiday in Germany (and the high number of German participants): NEW date: May 6th at 2pm CET. ############ Galaxy UniFreiburg is inviting you to a scheduled Zoom meeting. Topic: Metabolomics call Time: Mar 11, 2021 02:00 PM Amsterdam, Berlin, Rome, Stockholm, Vienna Join Zoom Meeting https://us02web.zoom.us/j/83143667601?pwd=eW51MWw4cUhBWmpvWnJyZkhHbmVXUT09 Meeting ID: 831 4366 7601 Passcode: 500839 One tap mobile +13462487799,,83143667601#,,,,500839# US (Houston) +16699006833,,83143667601#,,,,500839# US (San Jose) Dial by your location +1 346 248 7799 US (Houston) +1 669 900 6833 US (San Jose) +1 929 205 6099 US (New York) +1 253 215 8782 US (Tacoma) +1 301 715 8592 US (Washington DC) +1 312 626 6799 US (Chicago) Meeting ID: 831 4366 7601 Passcode: 500839 Find your local number: https://us02web.zoom.us/u/knP5PSwJn

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WG: Welcome to the "Metabolomics" mailing list
by Dr. Luciana Hannibal 06 Feb '21

06 Feb '21

Luciana Hannibal, Ph.D. Research Group Leader Laboratory of Clinical Biochemistry and Metabolism Center for General Pediatrics and Adolescent Medicine Medical Center, University of Freiburg Mathildenstraße 1, 79106 Freiburg, Germany Tel.: +49 761 270 43710 Fax: +49 761 270 45270 Email: luciana.hannibal(a)uniklinik-freiburg.de<mailto:luciana.hannibal@uniklinik-freiburg.de> URL: Hannibal Lab<http://www.research-for-children.de/groups/hannibal/> Translational Metabolomics<https://www.research-for-children.de/groups/metabocf/> ________________________________ Von: metabolomics-request(a)lists.galaxyproject.org <metabolomics-request(a)lists.galaxyproject.org> Gesendet: Samstag, 6. Februar 2021 09:34 An: Dr. Luciana Hannibal Betreff: Welcome to the "Metabolomics" mailing list Welcome to the "Metabolomics" mailing list! To post to this list, send your email to: metabolomics(a)lists.galaxyproject.org You can unsubscribe or make adjustments to your options via email by sending a message to: metabolomics-request(a)lists.galaxyproject.org with the word 'help' in the subject or body (don't include the quotes), and you will get back a message with instructions. You will need your password to change your options, but for security purposes, this password is not included here. If you have forgotten your password you will need to reset it via the web UI.

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Last update for the Galaxy Metabolomics Mini-Symposium
by Melanie Föll 27 Jan '21

27 Jan '21

Hi all, I have sent out the zoom link to all registered participants for the Galaxy Metabolomics Mini-Symposium ( https://usegalaxy-eu.github.io/event/2021-1-25-Metabolomics-Mini-Symposium/… ). If you haven’t received an email or in case you want to register for the event, please let me know. Best, Melanie

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Galaxy Metabolomics Mini-Symposium information and another event
by Melanie Föll 13 Jan '21

13 Jan '21

Dear all, I wish you a happy and healthy new year. Thank you for your feedback, we have a date for the Galaxy Metabolomics Mini-Symposium, which will take place on Friday January 29th from 9am to 12pm CET (Paris time). To register (for free) please add your name and affiliation to this document: https://docs.google.com/spreadsheets/d/1PiWVL_V01n6jNEkFC5roWFDxIBffZ3FUnvC… In this document you can also find the presenters and their topics/titles. Please contact me in case you would like to get a last minute presentation slot, we might be able to include a few more short talks into the schedule. A more detailed program will follow soon. Also I would like to draw your attention to another upcoming event: February 18th at 3pm CET is the second “Galaxy for mass spectrometry” call organized by Pratik Jagtap. Please contact Pratik if you are interested in joining or presenting: pjagtap(a)umn.edu. Cheers, Melanie

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proFIA help
by satish mutyam 06 Jan '21

06 Jan '21

Hi, I am trying to analyze my DIMS data through preprocessing FIAMS tool but I am failed, could you please provide us with any training or step by step procedure to analyse my data by using proFIA tool? Thanks Satish

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Reminder to take action for the Minisymposium
by Melanie Föll 16 Dec '20

16 Dec '20

Dear all, this is a kind reminder to take action for the upcoming Minisymposium until Friday 18th December: 1) please vote for potential dates for the Minisymposium (9 am to 12 pm CET) here: https://doodle.com/poll/3d9k9xif7d5mfxft?utm_source=poll&utm_medium=link 2) please register your name and in case you want to present, provide a talk title for the Minisymposium here: https://docs.google.com/spreadsheets/d/1PiWVL_V01n6jNEkFC5roWFDxIBffZ3FUnvC… Everyone is invited, please spread the word amongst your colleagues as well. Best, Melanie

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