From 73acbe48b9e256fe13c32824ff1c3f9956120daf Mon Sep 17 00:00:00 2001
From: Yassin <aliyassin4@hotmail.com>
Date: Sun, 7 May 2023 02:59:53 +0200
Subject: [PATCH] Updating the utils module
---
netbone/backbone.py | 2 +-
netbone/compare.py | 2 +-
netbone/filters.py | 2 +-
netbone/measures.py | 2 +-
netbone/statistical/global_threshold.py | 2 +-
netbone/utils/__init__.py | 0
netbone/utils/narrate.py | 0
netbone/utils/utils.py | 24 ++++++++++++++++++++++++
8 files changed, 29 insertions(+), 5 deletions(-)
create mode 100644 netbone/utils/__init__.py
create mode 100644 netbone/utils/narrate.py
create mode 100644 netbone/utils/utils.py
diff --git a/netbone/backbone.py b/netbone/backbone.py
index 9c8437b..db6c4ad 100644
--- a/netbone/backbone.py
+++ b/netbone/backbone.py
@@ -1,6 +1,6 @@
import networkx as nx
from pandas import DataFrame
-from netbone.Utils.utils import edge_properties
+from netbone.utils.utils import edge_properties
class Backbone:
diff --git a/netbone/compare.py b/netbone/compare.py
index 61e3902..7ec623d 100644
--- a/netbone/compare.py
+++ b/netbone/compare.py
@@ -1,6 +1,6 @@
import pandas as pd
import networkx as nx
-from netbone.Utils.utils import cumulative_dist
+from netbone.utils.utils import cumulative_dist
from netbone.filters import threshold_filter, boolean_filter
from pandas import DataFrame
from scipy.stats import kstest
diff --git a/netbone/filters.py b/netbone/filters.py
index d159c84..b32993b 100644
--- a/netbone/filters.py
+++ b/netbone/filters.py
@@ -1,7 +1,7 @@
import math
import networkx as nx
-from netbone.Utils.utils import edge_properties
+from netbone.utils.utils import edge_properties
def boolean_filter(backbone, narrate=True, value=[]):
if boolean_filter in backbone.filters():
data = backbone.graph
diff --git a/netbone/measures.py b/netbone/measures.py
index f422d92..e97bfc1 100644
--- a/netbone/measures.py
+++ b/netbone/measures.py
@@ -1,7 +1,7 @@
import igraph as ig
import networkx as nx
import numpy as np
-from netbone.Utils.utils import lcc
+from netbone.utils.utils import lcc
from scipy.stats import entropy
diff --git a/netbone/statistical/global_threshold.py b/netbone/statistical/global_threshold.py
index ac082ce..38a609a 100644
--- a/netbone/statistical/global_threshold.py
+++ b/netbone/statistical/global_threshold.py
@@ -1,7 +1,7 @@
import networkx as nx
from pandas import DataFrame
from networkx import Graph,to_pandas_edgelist
-from netbone.Utils.utils import edge_properties
+from netbone.utils.utils import edge_properties
from netbone.backbone import Backbone
from netbone.filters import fraction_filter, threshold_filter
def global_threshold(data):
diff --git a/netbone/utils/__init__.py b/netbone/utils/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/netbone/utils/narrate.py b/netbone/utils/narrate.py
new file mode 100644
index 0000000..e69de29
diff --git a/netbone/utils/utils.py b/netbone/utils/utils.py
new file mode 100644
index 0000000..0f31d2c
--- /dev/null
+++ b/netbone/utils/utils.py
@@ -0,0 +1,24 @@
+import numpy as np
+import pandas as pd
+import networkx as nx
+
+
+def lcc(G):
+ return G.subgraph(max(nx.connected_components(G), key=len)).copy()
+def cumulative_dist(name, method, values, increasing=True):
+ if increasing:
+ x = -np.sort(-np.array(values))
+ else:
+ x = np.sort(values)
+ y = np.arange(1, len(x) + 1)/len(x)
+
+ df = pd.DataFrame(index=x)
+ df.index.name = name
+ df[method] = y
+ return df
+
+def edge_properties(df):
+ columns = list(df.columns)
+ columns.remove('source')
+ columns.remove('target')
+ return columns
--
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