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author | Pjotr Prins | 2025-06-06 16:54:56 +0200 |
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committer | Pjotr Prins | 2025-06-13 07:00:19 +0200 |
commit | 03b86b1efc47bf3b197f908559e9f83231c8ba90 (patch) | |
tree | ae10801a7945cb5ed8ad893c84a6cb77c49fc2cb | |
parent | 6ba5d2f5514dccb72f29d29b43595b307e714afe (diff) | |
download | gn-gemtext-03b86b1efc47bf3b197f908559e9f83231c8ba90.tar.gz |
Next steps for GN learning
-rw-r--r-- | topics/gn-learning-team/next-steps.gmi | 48 |
1 files changed, 48 insertions, 0 deletions
diff --git a/topics/gn-learning-team/next-steps.gmi b/topics/gn-learning-team/next-steps.gmi new file mode 100644 index 0000000..b427923 --- /dev/null +++ b/topics/gn-learning-team/next-steps.gmi @@ -0,0 +1,48 @@ +# Next steps + +Wednesday we had a wrap-up meeting of the gn-learning efforts. + +## Data uploading + +The goal of these meetings was to learn how to upload data into GN. In the process Felix has become the de facto uploader, next to Arthur. A C. elegans dataset was uploaded and Felix is preparing + +* More C. elegans +* HSRat +* Kilifish +* Medaka + +Updates are here: + +=> https://issues.genenetwork.org/tasks/felixl + +We'll keep focussing on that work and hopefully we'll get more parties interested in doing some actual work down the line. + +## Hosting GN in Wageningen + +Harm commented that he thought these meetings were valuable, particularly we learnt a lot about GN ins and outs. Harm suggests we focus on hosting GN in Wageningen for C. elegans and Arabidopsis. +Pjotr says that is a priority this year, even if we start on a privately hosted machine in NL. Wageningen requires Docker images and Bonface says that is possible - with some work. So: + +* Host GN in NL +* Make GN specific for C.elegans and Arabidopsis - both trim and add datasets +* Create Docker container +* Host Docker container in Wageningen +* Present to other parties in Wageningen + +Having above datasets will help this effort succeed. + +## AI + +Harm is also very interested in the AI efforts and wants to pursue that in the context of above server - i.e., functionality arrives when it lands in GN. + +## Wormbase + +Jameson suggest we can work with Wormbase and the Caender folks once we have a running system. Interactive data analysis is very powerful and could run in conjunction with those sites. + +=> https://caendr.org/ +=> https://wormbase.org/ + +Other efforts are Flybase and Arabidopsis Magic which we can host, in principle. + +## Mapping methods + +Jameson will continue with his work on risiduals. |