risk-network 0.0.7b2__py3-none-any.whl → 0.0.7b3__py3-none-any.whl

risk/__init__.py

@@ -7,4 +7,4 @@ RISK: RISK Infers Spatial Kinships
 
 from risk.risk import RISK
 
-__version__ = "0.0.7-beta.2"
+__version__ = "0.0.7-beta.3"

risk/network/graph.py

@@ -306,6 +306,7 @@ def _get_colors(
     Returns:
         List[Tuple]: List of RGBA colors.
     """
+    # Set random seed for reproducibility
     random.seed(random_seed)
     # Determine the number of colors to generate based on the number of domains
     num_colors_to_generate = len(domain_id_to_node_ids_map)
@@ -321,15 +322,21 @@ def _get_colors(
     # Step 2: Calculate pairwise distances between centroids
     centroid_array = np.array(centroids)
     dist_matrix = np.linalg.norm(centroid_array[:, None] - centroid_array, axis=-1)
+
     # Step 3: Generate positions in the colormap, with a focus on centroids that are close
     remaining_indices = set(range(num_colors_to_generate))
     # Assign distant colors to close centroids
     color_positions = _assign_distant_colors(
         remaining_indices, dist_matrix, colormap, num_colors_to_generate
     )
-    # Step 4: Add some random jitter to color positions to avoid overly systematic results
-    jitter = np.random.uniform(-0.05, 0.05, size=num_colors_to_generate)
-    color_positions = np.clip(color_positions + jitter, 0, 1)
+
+    # Step 4: Randomly shuffle color positions to generate a new color palette
+    # while maintaining the dissimilarity between neighboring colors. This shuffling
+    # preserves the relative distances between centroids, ensuring that close centroids
+    # remain visually distinct while introducing randomness into the overall color arrangement.
+    random.shuffle(color_positions)
+    # Ensure that all positions remain between 0 and 1
+    color_positions = np.clip(color_positions, 0, 1)
 
     # Step 5: Generate colors based on positions
     return [colormap(pos) for pos in color_positions]

{risk_network-0.0.7b2.dist-info → risk_network-0.0.7b3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: risk-network
-Version: 0.0.7b2
+Version: 0.0.7b3
 Summary: A Python package for biological network analysis
 Author: Ira Horecka
 Author-email: Ira Horecka <ira89@icloud.com>

{risk_network-0.0.7b2.dist-info → risk_network-0.0.7b3.dist-info}/RECORD

@@ -1,4 +1,4 @@
-risk/__init__.py,sha256=zz24rmHCv_OZ2BTaD6vukHUL67ZFgDcpxy7mi6Hczrw,112
+risk/__init__.py,sha256=Yoz9l74qVwPoFeWtUKqy_dgQZlDTZtaNIvtmzNx5G78,112
 risk/constants.py,sha256=XInRaH78Slnw_sWgAsBFbUHkyA0h0jL0DKGuQNbOvjM,550
 risk/risk.py,sha256=jhfOv60iZdOssCF35tAjJ_br9w8aIqPFT2owVTehgtA,20648
 risk/annotations/__init__.py,sha256=vUpVvMRE5if01Ic8QY6M2Ae3EFGJHdugEe9PdEkAW4Y,138
@@ -13,7 +13,7 @@ risk/neighborhoods/domains.py,sha256=bxJUxqFTynzX0mf3E8-AA4_Rfccje1reeVVhfzb1-pE
 risk/neighborhoods/neighborhoods.py,sha256=cEk4gDvIkBky5POZhtHnO78iV-NXu4BeV-e5XdhYOkM,17508
 risk/network/__init__.py,sha256=iEPeJdZfqp0toxtbElryB8jbz9_t_k4QQ3iDvKE8C_0,126
 risk/network/geometry.py,sha256=H1yGVVqgbfpzBzJwEheDLfvGLSA284jGQQTn612L4Vc,6759
-risk/network/graph.py,sha256=TMri3aQsWjnq8be4QCwwSke3y4ja_x-ptl1q40rbDbg,16667
+risk/network/graph.py,sha256=_ZCyT2b9RtKAYzwul-Kp9__uQwTcagECf-mPMiAmP8U,16977
 risk/network/io.py,sha256=gG50kOknO-D3HkW1HsbHMkTMvjUtn3l4W4Jwd-rXNr8,21202
 risk/network/plot.py,sha256=F6KPjmBYWrThKZScHs9SuzoKQiytBvzrmGhGberHjwo,62063
 risk/stats/__init__.py,sha256=e-BE_Dr_jgiK6hKM-T-tlG4yvHnId8e5qjnM0pdwNVc,230
@@ -23,8 +23,8 @@ risk/stats/stats.py,sha256=kvShov-94W6ffgDUTb522vB9hDJQSyTsYif_UIaFfSM,7059
 risk/stats/permutation/__init__.py,sha256=neJp7FENC-zg_CGOXqv-iIvz1r5XUKI9Ruxhmq7kDOI,105
 risk/stats/permutation/permutation.py,sha256=qLWdwxEY6nmkYPxpM8HLDcd2mbqYv9Qr7CKtJvhLqIM,9220
 risk/stats/permutation/test_functions.py,sha256=HuDIM-V1jkkfE1rlaIqrWWBSKZt3dQ1f-YEDjWpnLSE,2343
-risk_network-0.0.7b2.dist-info/LICENSE,sha256=jOtLnuWt7d5Hsx6XXB2QxzrSe2sWWh3NgMfFRetluQM,35147
-risk_network-0.0.7b2.dist-info/METADATA,sha256=u4otPSVK9-85VhsLICNfP_kz4aXgnnJ_xo5UYfSv3fQ,43142
-risk_network-0.0.7b2.dist-info/WHEEL,sha256=GV9aMThwP_4oNCtvEC2ec3qUYutgWeAzklro_0m4WJQ,91
-risk_network-0.0.7b2.dist-info/top_level.txt,sha256=NX7C2PFKTvC1JhVKv14DFlFAIFnKc6Lpsu1ZfxvQwVw,5
-risk_network-0.0.7b2.dist-info/RECORD,,
+risk_network-0.0.7b3.dist-info/LICENSE,sha256=jOtLnuWt7d5Hsx6XXB2QxzrSe2sWWh3NgMfFRetluQM,35147
+risk_network-0.0.7b3.dist-info/METADATA,sha256=6D_1SuZdpPYaUQLLzctNrVLC_gdzsTrx7V1leqBvcio,43142
+risk_network-0.0.7b3.dist-info/WHEEL,sha256=GV9aMThwP_4oNCtvEC2ec3qUYutgWeAzklro_0m4WJQ,91
+risk_network-0.0.7b3.dist-info/top_level.txt,sha256=NX7C2PFKTvC1JhVKv14DFlFAIFnKc6Lpsu1ZfxvQwVw,5
+risk_network-0.0.7b3.dist-info/RECORD,,