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| -rw-r--r-- | README.gmi | 2 | ||||
| -rw-r--r-- | topics/gn1-migration-to-gn2/clustering.gmi | 29 | ||||
| -rw-r--r-- | topics/gn1-migration-to-gn2/heatmap.png | bin | 0 -> 338943 bytes |
3 files changed, 30 insertions, 1 deletions
@@ -10,4 +10,4 @@ We have decided to move our existing issue trackers and kanban board to one gemi => https://gemini.circumlunar.space/docs/gemtext.gmi GemText markdown/markup => https://en.wikipedia.org/wiki/Gemini_(protocol) Gemini protocol -Issues are simple gemini documents that grow downwards - dating is managed through git. We'll add a proxy to display these documents. The kanban is managed through a directory and symbolic links.
\ No newline at end of file +Issues are simple gemini documents that grow downwards - dating of additions is managed through git. We'll add a proxy to display these documents. The kanban is managed through a directory and symbolic links. diff --git a/topics/gn1-migration-to-gn2/clustering.gmi b/topics/gn1-migration-to-gn2/clustering.gmi new file mode 100644 index 0000000..c2c3ff4 --- /dev/null +++ b/topics/gn1-migration-to-gn2/clustering.gmi @@ -0,0 +1,29 @@ +# Migrate GN1 Clustering + +GeneNetwork1 has clustering output that we want to migrate to GN2. For example, go to + +=> http://gn1-lily.genenetwork.org/ GN1 on Lily + +Select Type -> CRTD mRNA data and do a search for 'synap*'. Click on the top 10 results checkboxes and Add to the basket (add is an icon). Now click on 'Select all' and the 'Heat map' icons. Computation may take a while. + +Next click on 'Cluster traits' and 'Redraw' map. This is the one we want in GN3/GN2! + +=> ./heatmap.png + +## Members + +* fredm +* pjotr + +## Useful links + +=> https://github.com/genenetwork/genenetwork1/tree/master/web/webqtl/heatmap Implementation + +## Implementation + +As a first step the computations should move to GN3 with proper regression/unit testing scripts. Next wire them up as REST API endpoints and add it to the GN2 web interface: + +- [ ] Move computation to GN3 +- [ ] Create REST API endpoints +- [ ] Add regression/unit tests in GN3 +- [ ] Add to GN2 web interface diff --git a/topics/gn1-migration-to-gn2/heatmap.png b/topics/gn1-migration-to-gn2/heatmap.png Binary files differnew file mode 100644 index 0000000..ffa4701 --- /dev/null +++ b/topics/gn1-migration-to-gn2/heatmap.png |
