docs and community import

yollct · Apr 22, 2022 · 2624351 · 2624351
1 parent 8377b7d
commit 2624351
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Showing 3 changed files with 15 additions and 11 deletions.
diff --git a/docs/source/api/index.rst b/docs/source/api/index.rst
@@ -40,15 +40,6 @@ preprocess
 
     preprocess
 
-connectivity
---------------
-.. currentmodule:: spycone.connectivity
-
-.. autosummary::
-    :template: ./_templates/class.rst
-    :toctree: generated/
-
-    connectivity
 
 iso_function
 -------------
@@ -108,4 +99,17 @@ visualize
     spycone.visualize.vis_all_clusters
     spycone.visualize.switch_plot
     spycone.visualize.gsea_plot
+
+
+iso_function
+-------------
+.. currentmodule:: spycone.splicingfactor
+
+.. autosummary::
+    :template: ./_templates/class.rst
+    :toctree: generated/
+
+    spycone.splicingfactor.SF_coexpression
+    spycone.splicingfactor.SF_motifsearch
+
 
diff --git a/spycone/BioNetwork.py b/spycone/BioNetwork.py
@@ -68,7 +68,7 @@ def __init__(
         """
         if self.path == "human":
             #print("Reading edge list and removing loops")
-            path = os.path.join(dir_path,f'data/network/9606_biogrid_entrez.tab')
+            path = os.path.join(dir_path,f'data/network/9606_ddi_weighted_biogrid_entrez.tab')
             g = nx.read_edgelist(path=path, **self.kwargs)
             tmp = 0
             for gene in g:

diff --git a/spycone/DOMINO/src/core/preprocess_slices.py b/spycone/DOMINO/src/core/preprocess_slices.py
@@ -2,7 +2,7 @@
 sys.path.insert(0, "../")
 import networkx as nx
 import pandas as pd
-import community as community_louvain
+import community.community_louvain as community_louvain
 import numpy as np
 
 def create_slices(network_file, output_file_name, resolution=0.15):