From d16b07f612ff87791dc63f976e872301dc332fd0 Mon Sep 17 00:00:00 2001 From: Pjotr Prins Date: Wed, 17 Nov 2021 07:24:35 -0600 Subject: geewiki --- story-boards/starting-from-known-gene/generate.sh | 3 +++ story-boards/starting-from-known-gene/genewiki.png | Bin 0 -> 148494 bytes .../starting-from-known-gene.md | 17 ++++++++++++----- 3 files changed, 15 insertions(+), 5 deletions(-) create mode 100644 story-boards/starting-from-known-gene/genewiki.png (limited to 'story-boards/starting-from-known-gene') diff --git a/story-boards/starting-from-known-gene/generate.sh b/story-boards/starting-from-known-gene/generate.sh index d309ef8..c5d4d3d 100755 --- a/story-boards/starting-from-known-gene/generate.sh +++ b/story-boards/starting-from-known-gene/generate.sh @@ -1,5 +1,8 @@ #!/bin/bash +ruby ../../scripts/screenshot.rb --url "http://gn1.genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol=BRCA2" --out genewiki.png --extract 1200x500+0+0 + +exit 1 ruby ../../scripts/screenshot.rb --url "https://genenetwork.org/" --out genenetwork-home.png convert -extract 800x100+0+0 genenetwork-home.png global-search.png diff --git a/story-boards/starting-from-known-gene/genewiki.png b/story-boards/starting-from-known-gene/genewiki.png new file mode 100644 index 0000000..22d7580 Binary files /dev/null and b/story-boards/starting-from-known-gene/genewiki.png differ diff --git a/story-boards/starting-from-known-gene/starting-from-known-gene.md b/story-boards/starting-from-known-gene/starting-from-known-gene.md index 3eaaafd..2abd7a1 100644 --- a/story-boards/starting-from-known-gene/starting-from-known-gene.md +++ b/story-boards/starting-from-known-gene/starting-from-known-gene.md @@ -2,7 +2,7 @@ GeneNetwork contains data on thousands of experiments. How do you mine GN when you have the name of a gene? Start with [BRCA2](https://genenetwork.org/genes/BRCA2). -## Use the search page +# Use the search page The top bar of GeneNetwork shows a global search: @@ -12,7 +12,9 @@ We can look for the `Brca2` mouse gene, resulting in [![Global search](./global-search-gene.png "Global search gene")]() -## Find the right alias/name +FIXME: @zsloan above image should show a table of results too, see https://github.com/genenetwork/genenetwork2/issues/629 + +# Find the right alias/name GeneNetwork knows about aliases. But sometimes you want to check what aliases there are in mouse. If you search for BRCA2 and click on a search result, for example for [1448542_at](http://genenetwork.org/show_trait?trait_id=1448542_at&dataset=HC_M2_0606_P), you get to the 'trait page' which shows the aliases: @@ -21,11 +23,16 @@ you get to the 'trait page' which shows the aliases: GeneNetwork ignores case by default. In a search use quotes to search case sensitive. For example, [BRCA2](https://www.wikidata.org/wiki/Q17853272) on wikidata.org refers to the human gene. The mouse gene is named [Brca2](https://www.wikidata.org/wiki/Q14864738). -## Find the GeneNetwork genewiki entry -GeneNetwork maintains info on gene entries. For example for [BRCA2](http://gn1.genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol=BRCA2). +# Find the GeneNetwork genewiki entry + +GeneNetwork maintains info on gene entries. For example for BRCA2: + +[![Genewiki](./genewiki.png "Genewiki for Brca2")](http://gn1.genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol=BRCA2) + +FIXME: we aim to move this functionality to markdown -## TODO +# TODO * [ ] expand story line * [ ] global search is faulty, see gn-gemtext-threads/issues/genenetwork/global-search.gmi -- cgit v1.2.3