diff options
| author | Lan Hui <lanhui@zjnu.edu.cn> | 2025-10-15 14:50:13 +0800 |
|---|---|---|
| committer | Lan Hui <lanhui@zjnu.edu.cn> | 2025-10-15 14:50:13 +0800 |
| commit | f326111f8a05d167500b86e8975de30d2a682b6a (patch) | |
| tree | ef77ab7cbbd8dc9f4d69f2b56acd2c0f0ccb73fa | |
| parent | 544b8bcab663f20998ceccb6bbc6407321e29883 (diff) | |
Another way to view scatterplot and how to update gene expression data (json format)
| -rw-r--r-- | brain.documentation/QUICKSTART.rst | 4 |
1 files changed, 4 insertions, 0 deletions
diff --git a/brain.documentation/QUICKSTART.rst b/brain.documentation/QUICKSTART.rst index 33a4a36..8a862df 100644 --- a/brain.documentation/QUICKSTART.rst +++ b/brain.documentation/QUICKSTART.rst @@ -1000,6 +1000,10 @@ As a utility, we can draw a scatterplot for an arbitrary pair of genes. This co At2g25930 At5g61380 sc +- Another way to view gene expression scatterplots is to use the **hypogen** program. Go to folder brain/code_review_drawScatterplot/hypogen, and type command ``python3 -m http.server`` to start the web app. Visit http://127.0.0.1:8000/scatterplot.html. + Enter two genes in the input fields "TF gene" and "Target gene", then click the Show button. + + .. note:: **Update gene expression levels** Hypogen stores gene expression levels across various conditions for each gene in JSON format (see the folder hypogen/json/). To update these JSON files, run Bash script ``update_gene_expression_json.sh``. Drawing sub-networks |