data: Moon example data

networkcommons/_data/_omics/__init__.py

@@ -17,3 +17,4 @@
 from ._decryptm_ebi import get_decryptm as _get_decryptm
 from ._deseq2 import *
 from ._panacea import *
+from ._moon import *

networkcommons/_data/_omics/_moon.py

@@ -0,0 +1,44 @@
+#!/usr/bin/env python
+
+#
+# This file is part of the `networkcommons` Python module
+#
+# Copyright 2024
+# Heidelberg University Hospital
+#
+# File author(s): Saez Lab ([email protected])
+#
+# Distributed under the GPLv3 license
+# See the file `LICENSE` or read a copy at
+# https://www.gnu.org/licenses/gpl-3.0.txt
+#
+
+"""
+Access to Moon example omics data.
+"""
+
+from __future__ import annotations
+
+import pandas as pd
+
+from . import _common
+
+__all__ = ['moon']
+
+
+def moon() -> dict[str, pd.DataFrame]:
+    """
+    Example data for Moon.
+
+    Returns:
+        Three data frames: signaling, metabolite and gene activity
+        measurements.
+    """
+
+    return {
+        table: _common._open(
+            _common._commons_url('moon', table = table),
+            df = {'sep': '\t'},
+        )
+        for table in ('sig', 'metab', 'rna')
+    }

networkcommons/_data/datasets.yaml

@@ -13,3 +13,11 @@ omics:
       name: Test data
       description: Small RNA-Seq data for unit tests
       path: unit_test/test__{table}data.tsv
+    moon:
+      name: MOON
+      description: Database files for running MOON
+      path: moon/{table}_input.tsv
+    cosmos:
+      name: COSMOS
+      description: Database files for running COSMOS (MetaPKN)
+      path: moon/net/meta_network.sif