PyOVERCAST 1.0.14__tar.gz → 1.0.16__tar.gz

{pyovercast-1.0.14 → pyovercast-1.0.16}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: PyOVERCAST
-Version: 1.0.14
+Version: 1.0.16
 Summary: A Python package for mining key transcription factors from transcriptome data.
 Author-email: Tinghua Huang <thua45@126.com>
 License-Expression: MIT

{pyovercast-1.0.14 → pyovercast-1.0.16}/PyOVERCAST/predict.py

@@ -382,7 +382,9 @@ def plot_rrho(rrho_df, out_file=None, title="RRLO Matrix (Overlaps)", cmap="magm
 	if out_file:
 		plt.savefig(out_file + '.pdf', dpi=300, bbox_inches="tight")
 		plt.savefig(out_file + '.svg', dpi=300, bbox_inches="tight")
-	plt.show()
+		plt.close()
+	else:
+		plt.show()
 
 def plot_olc_plot(df1, df2, win):
 	gene_col1 = df1.columns[0]
@@ -466,7 +468,9 @@ def plot_3D_surface(heatmap_a, out_file=None):
 	if out_file:
 		plt.savefig(out_file + '.pdf', dpi=300, bbox_inches="tight")
 		plt.savefig(out_file + '.svg', dpi=300, bbox_inches="tight")
-	plt.show()
+		plt.close()
+	else:
+		plt.show()
 
 def plot_fit3D_plot(df1, df2, win):
 	gene_col1 = df1.columns[0]
@@ -912,11 +916,14 @@ def plot_contour_graph(rrho_df, out_file=None):
 	ax.set_title('Contour Graph of RRLO Matrix')
 	# ax.set_aspect('equal')
 	plt.tight_layout()
-	#plt.savefig('contour_graph_invF.png', dpi=150)
-	plt.show()
+	if out_file != None:
+		plt.savefig(out_file, dpi=150)
+		plt.close()
+	else:
+		plt.show()
 
 
-def plot_contour_plot(df1, df2, win):
+def plot_contour_plot(df1, df2, win, out_file=None):
 	gene_col1 = df1.columns[0]
 	score_col1 = df1.columns[1]
 	df1 = df1.sort_values(score_col1, ascending=False)
@@ -943,9 +950,9 @@ def plot_contour_plot(df1, df2, win):
 
 	#beta_xy, pval_xy = td_coor(rrho_df.to_numpy())
 	# df = Z_to_frame(rrho_df.to_numpy())
-	plot_contour_graph(rrho_df)
+	plot_contour_graph(rrho_df, out_file=out_file)
 
-def plot_contour(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], list_file='input_deg-list.txt', tf='NFKB1_HUMAN.H11MO.1.B', win=30, data_dir=None):
+def plot_contour(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], list_file='input_deg-list.txt', tf='NFKB1_HUMAN.H11MO.1.B', win=30, data_dir=None, out_file=None):
 	if data_dir == None:
 		data_dir = overcast_data_dir
 	if not (os.path.exists(data_dir) and os.path.isdir(data_dir)):
@@ -971,10 +978,10 @@ def plot_contour(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], list_file='in
 	epsilon = 1e-15   # 常用值
 	for i in range(tf_n):
 		if tfbs_array[i][0] == tf:
-			plot_contour_plot(deg_list, tfbs_array[i][1], win)
+			plot_contour_plot(deg_list, tfbs_array[i][1], win, out_file=out_file)
 			break
 
-def plot_contour_permutation(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], list_file='input_deg-list.txt', tf='NFKB1_HUMAN.H11MO.1.B', win=30, data_dir=None):
+def plot_contour_permutation(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], list_file='input_deg-list.txt', tf='NFKB1_HUMAN.H11MO.1.B', win=30, data_dir=None, out_file=None):
 	if data_dir == None:
 		data_dir = overcast_data_dir
 	if not (os.path.exists(data_dir) and os.path.isdir(data_dir)):
@@ -1001,7 +1008,7 @@ def plot_contour_permutation(set_names=['human_hocomoco_CLink_wtcoor_1w_0.8'], l
 	for i in range(tf_n):
 		if tfbs_array[i][0] == tf:
 			gene_set_pt, gene_list_pt = permutation(tfbs_array[i][1], deg_list)
-			plot_contour_plot(gene_list_pt, gene_set_pt, win)
+			plot_contour_plot(gene_list_pt, gene_set_pt, win, out_file=out_file)
 			# plot_contour_plot(deg_list, tfbs_array[i][1], win)
 			break
 

{pyovercast-1.0.14 → pyovercast-1.0.16}/PyOVERCAST.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: PyOVERCAST
-Version: 1.0.14
+Version: 1.0.16
 Summary: A Python package for mining key transcription factors from transcriptome data.
 Author-email: Tinghua Huang <thua45@126.com>
 License-Expression: MIT

{pyovercast-1.0.14 → pyovercast-1.0.16}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "PyOVERCAST"
-version = "1.0.14"
+version = "1.0.16"
 license = "MIT"  # SPDX expression
 description = "A Python package for mining key transcription factors from transcriptome data."
 readme = "README.md"