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authorPjotr Prins2021-07-18 11:28:41 +0200
committerPjotr Prins2021-07-18 11:28:41 +0200
commit4c96915e5cba998f82a08ca60aefff9ff1760a60 (patch)
treedc53c095efc341cf426175e344a6349242e44704 /topics/gn1-migration-to-gn2
parentb2f0072231bb8387193bc93622db74bbfe6ef72c (diff)
downloadgn-gemtext-4c96915e5cba998f82a08ca60aefff9ff1760a60.tar.gz
Add GN1 clustering
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+# 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
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