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Load the Allen Gene Expression Atlas (AGEA) volumes using iblatlas. Use when the user asks to load AGEA, gene expression volumes, or the gene expression atlas.
Codex または Claude でインストール この Prompt をコピーして Codex、Claude、または他のアシスタントに貼り付けると、Skill ページを確認してインストールできます。
SOC 職業分類に基づく
Load the Allen/Knox regularized-regression mesoscale mouse connectivity matrix and the Harris et al. cortico-thalamic hierarchy scores using iblatlas. Use when the user asks to load mesoscale connectivity, the mouse connectome, connection strength/density, or cortical/thalamic hierarchy scores.
Load the MERFISH single-cell atlas (parquet dataframes) and the MERFISH cell-type density volumes using iblatlas, including how to denoise the volumes. Use when the user asks to load MERFISH, single-cell atlas data, cell-type data, MERFISH volumes, or how to denoise/preprocess them.
| name | iblatlas-genomics-agea |
| description | Load the Allen Gene Expression Atlas (AGEA) volumes using iblatlas. Use when the user asks to load AGEA, gene expression volumes, or the gene expression atlas. |
| allowed-tools | ["Read"] |
name: ea-load-gene-expression-volumes
Read sources/examples/02_download_gene_expression_atlas.py for the canonical pattern and adapt it to context.
| Variable | Description |
|---|---|
df_genes | DataFrame with one row per gene; key column: gene (gene symbol string) |
expression_volumes | Array of 3-D volumetric gene expression data, indexed by row position in df_genes |
agea_atlas | AllenAtlas-like object with .bc coordinate converter and .plot_cslice / .plot_sslice methods |
label='processed' loads the denoised expression volumes; omit for raw.igene = np.where(df_genes['gene'] == 'Slc17a7')[0][0], then expression_volumes[igene].agea_atlas.bc: .x2i(), .y2i(), .z2i() convert MNI metres → voxel indices.agea_atlas.plot_cslice(y, volume=expression_volumes[igene], cmap='Blues').