Hi all,
The next microGalaxy Working group meeting for the Paper working group
<https://docs.google.com/document/d/1uVQ8E_8HpIuHDYHwR82jU8pCvj0tnebFKyS0juA…>
will take place June 13th, 1pm UTC
Main Topics:
-
First impression of the survey (59 Answers)
-
Template for the people who want to join the community-oriented paper
-
Ideas for the community-oriented paper
We hope to see you around!
--
Dr. Paul Zierep
Chair for Bioinformatics
Department of Computer Science
University of Freiburg
Georges-Koehler-Allee 079,
Room 1005a,
D-79110 Freiburg, Germany
E-mail: zierep(a)informatik.uni-freiburg.de
<erxleben(a)informatik.uni-freiburg.de>
Tel. 0049 761 203 54129
European Galaxy Team
https://galaxyproject.euhttps://usegalaxy.eu
Hi all,
We would like to learnmore about use caseswhere Galaxy was beneficial,
and also the barriersthat prevent researchers from using Galaxy. The aim
is to collectively find solutions to improve user experience and reduce
barriers.
To this end, we launch a short survey (open untilApril 20th) to reach
out to and learn from the microbial research community:
https://forms.gle/q8LizeoHCxjjQp559
We encourage anyone to fill out this survey who:
*
has used Galaxy for any kind of microbial focused research (e.g.
metagenomics, metatranscriptomics, microbiome, bacterial isolates …
), or
*
conducts microbial research or is planning to do so, but has not yet
used Galaxy, or is hindered by certain aspects of Galaxy from using it.
You can find more information about this survey and how we plan to use
it on the dedicated post here:
https://galaxyproject.org/news/2023-03-21-microbial-survey
Please feel free to share this survey with anyone around you, or in your
communities (I pasted a template email/post below and attached a visual)
Thank you for your help supporting better microbial data analysis in Galaxy!
Best,
Bérénice
----
*Template*
Subject: Evaluation of uses and needs for microbial data analysis in
Galaxy - A survey
Dear <Community>,
Galaxy is an open-access, web-based platform for data-intensive
computational research. It is used in a variety of domains including
microbial data analysis: for microbiome samples or bacterial isolates,
long reads or short, shotgun or 16S, genomics, transcriptomics, or
proteomics.
microGalaxy
<https://galaxyproject.org/projects/microbial/#microgalaxy-community>, a
community of practice focused on microbial data analysis in Galaxy,
would like to learnmore about use caseswhere Galaxy was beneficial, and
also the barriersthat prevent researchers from using Galaxy. The aim is
to collectively find solutions to improve user experience and reduce
barriers.
To this end, we launch a short survey (open untilApril 20th) to reach
out to and learn from the microbial research community:
https://forms.gle/q8LizeoHCxjjQp559
We encourage anyone to fill out this survey who:
*
has used Galaxy for any kind of microbial focused research (e.g.
metagenomics, metatranscriptomics, microbiome, bacterial isolates …
), or
*
conducts microbial research or is planning to do so, but has not yet
used Galaxy, or is hindered by certain aspects of Galaxy from using it.
You can find more information about this survey and how we plan to use
it on the dedicated post here:
https://galaxyproject.org/news/2023-03-21-microbial-survey
Please feel free to share this survey with anyone around you, or in your
communities!
Thank you for your help supporting better microbial data analysis in Galaxy!
<Your name>
On behalf of the microGalaxy community
--
Bérénice Batut (she/her)
Researcher
University of Freiburg
de.NBI / ELIXIR-DE
https://research.bebatut.fr
Dear all,
During our meetings 2 weeks ago, we decided to start 2 working groups: 1
for tool and 1 for paper(s)
If you want to participate to any of this working group, please *fill
the following forms before the 2nd of March* to find the meeting date
* Tool working group <https://doodle.com/meeting/participate/id/eXQvNnoa>
* Paper working group <https://doodle.com/meeting/participate/id/ax6AKzqd>
If none of the dates or hours fit for you and you want to participate,
please let me know so I can try to find extra slots.
Thank you!
Best,
Bérénice
--
Bérénice Batut (she/her)
Researcher
University of Freiburg
de.NBI / ELIXIR-DE
https://research.bebatut.fr
Hi all,
First of all, happy new year!
We organize a practical workshop for (foodborne) pathogen detection from
(direct Nanopore) sequencing data using Galaxy
* Date: February 2nd, 2023
* Location: FHNW, Switzerland & online
* Free
* Info & Registration :
https://galaxyproject.org/events/2023-02-02-foodborne-pathogen-detection-wo…
Feel free to share the information with anyone that would be interested.
Best,
--
Bérénice Batut (she/her)
Researcher
University of Freiburg
de.NBI / ELIXIR-DE
https://research.bebatut.fr
Dear all,
I hope you are doing well!
Here are some news about the microGalaxy community.
*Previous meeting - October 5th during European Galaxy Days*
During our last meeting 2 weeks ago (see notes
<https://docs.google.com/document/d/13VjcUjStuIp7bK29e74k8Nqb7N4lmVcg1ioArEW…>),
we discussed:
* We would like to create a page on the Galaxy Hub collecting tools,
workflows, projects, etc and present the microGalaxy community
o We created a draft for such page on Google doc
<https://docs.google.com/document/d/1SsUi5ZOxWbkCpnw1IYmDR0WpRK0csVMHzYhuME5…>
o We would like *your feedback on the structure*
o *Could you also add some details about your projects and nice
papers using Galaxy for microbial data analysis?
*
* The Hub page could be a starting point for a possible paper to show
/ advertise microb* analyses are possible in Galaxy, and also define
a vision for the next years
o *If you are interested in leading this effort, please let us know*
*
*
*Next meeting - February **9, 2023, 9-11am CEST*
The next microGalaxy meeting will take place on *February 9, 2023,
9-11am CEST***(check your timing)
<https://arewemeetingyet.com/Berlin/2023-02-09/09:00/microGalaxy>
* Meeting rolling minutes
<https://docs.google.com/document/d/13VjcUjStuIp7bK29e74k8Nqb7N4lmVcg1ioArEW…>
* Zoom
<https://us02web.zoom.us/j/82453101719?pwd=NlJudHk1c0xqSC83eXM4bTM1YWJ2UT09>
(Meeting ID: 824 5310 1719; Passcode: micro)
If you are *interested in giving a talk*, please either contact me or
add your name in the table on the first page of the minutes.
Best,
Bérénice
--
Bérénice Batut (she/her)
Researcher
University of Freiburg
de.NBI / ELIXIR-DE
https://research.bebatut.fr