geney 1.4.2__py2.py3-none-any.whl → 1.4.4__py2.py3-none-any.whl

geney/SpliceSimulator.py

@@ -115,21 +115,16 @@ class SpliceSimulator:
 
             pd.Series: A series with keys 'donor' and 'acceptor' containing the maximum differences.
         """
-        # max_missplicing = {}
-        # for site_type in ['donors', 'acceptors']:
-        #     df = self.full_df[site_type]
-        #     max_missplicing[site_type] = max(abs(df[event] - df['ref_prob']))
-        # return pd.Series(max_missplicing)
-        max_missplicing = {}
+        all_diffs = []
+
         for site_type in ['donors', 'acceptors']:
             df = self.full_df[site_type]
-            # compute the signed difference
-            diff = df[event] - df['ref_prob']
-            # find the index of the max abs value
-            idx = diff.abs().idxmax()
-            # store the signed value at that index
-            max_missplicing[site_type] = diff.loc[idx]
-        return pd.Series(max_missplicing)
+            diffs = (df[event] - df['ref_prob']).tolist()
+            all_diffs.extend(diffs)
+
+        # max(..., key=abs) picks the element whose absolute value is largest
+        max_diff = max(all_diffs, key=abs)
+        return max_diff
 
     def set_donor_nodes(self) -> None:
         """

geney/utils/pangolin_utils.py

@@ -1,6 +1,6 @@
 # Load models
 #
-__all__ = ['pangolin_predict_probs']
+# __all__ = ['pangolin_predict_probs']
  # Load models
 import torch
 from pkg_resources import resource_filename

geney/utils/spliceai_utils.py

@@ -40,7 +40,7 @@
 #
 #     sai_models = [load_model(f) for f in sai_paths]
 
-__all__ = ['sai_predict_probs']
+# __all__ = ['sai_predict_probs']
 import os
 os.environ['TF_CPP_MIN_LOG_LEVEL'] = '3'
 

geney/utils/splicing_utils.py

@@ -1,4 +1,4 @@
-__all__ = ['run_splicing_engine', 'adjoin_splicing_outcomes', 'process_epistasis']
+# __all__ = ['run_splicing_engine', 'adjoin_splicing_outcomes', 'process_epistasis']
 
 import pandas as pd
 from typing import List, Tuple

{geney-1.4.2.dist-info → geney-1.4.4.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: geney
-Version: 1.4.2
+Version: 1.4.4
 Summary: A Python package for gene expression modeling.
 Home-page: https://github.com/nicolaslynn/geney
 Author: Nicolas Lynn

{geney-1.4.2.dist-info → geney-1.4.4.dist-info}/RECORD

@@ -2,7 +2,7 @@ geney/Fasta_segment.py,sha256=99HxNGNh_MfdVW6hhtlb1vOn7eSmT7oFoEfHDFMxG8w,11275
 geney/Gene.py,sha256=G-5ROebtvbVazzPlsBJ1r2DEduCwsIA5S8_TmBuoyjw,7030
 geney/Oncosplice.py,sha256=ETAvMl_Oq6mEJQHPNwdDO5csX6Ahuped_om10KifCyM,17739
 geney/SeqMats.py,sha256=9-eJnfU2w3LGc0XvVvFEO_QrBneTkC6xkZKDfTcEw5o,19282
-geney/SpliceSimulator.py,sha256=oOLfApT5lFGsGDT-yY2aLPFOuwxYHmLJgq3opCulsn8,18832
+geney/SpliceSimulator.py,sha256=iF6feVeSnsKFmn3WV60CgWLI0_rSLgpq5fVFL1IOv_4,18491
 geney/Transcript.py,sha256=Wu0UiubFOdasfPCpe9uGfhPDG4MNks5LzUqGzo85ong,14458
 geney/__init__.py,sha256=YLWXJS53yeryp6nVhCgFg3_Du9Guj9y3iSrdfx61q5Y,3017
 geney/_config_setup.py,sha256=nblcGU3HIt8YjdrAoGfbEVKRxwJKv0PikJ5-7AL6axQ,723
@@ -41,11 +41,11 @@ geney/utils/SeqMats.py,sha256=vjU0lTkB0s0RoLjNXLqt0kJQDni-it09-iAOv5QAYFs,17686
 geney/utils/TranscriptLibrary.py,sha256=ma_ZVPgglxXDDneEvdqxxeqxG8eSFL-zgLUXyC6BqY8,2070
 geney/utils/__init__.py,sha256=jCoB0doidTbCFT34Yx8gQROcZOsw4LnqhgkwRgGQWt0,693
 geney/utils/mutation_utils.py,sha256=r-pHr56gEa5kh_DPX8MjFY3ZfYaOtyo4CUfJ5ZHlXPw,3243
-geney/utils/pangolin_utils.py,sha256=EUadXPxY7QUnsQrlyO7K5cg9mi5ssZjSDvNa_SzoBQg,6160
-geney/utils/spliceai_utils.py,sha256=oRrGJqjWirzYmiBmUR9hGr4B7V_7Y1uMyRTmbFKc_t0,4539
-geney/utils/splicing_utils.py,sha256=_Df3SakZrDjs2yKLG05TtfwuoXDLLrZWc9Y8i79rFDM,20633
+geney/utils/pangolin_utils.py,sha256=JQSPbWxdzqGFYfWQktkfLMaMSGR28eGQhNzO7MLMe5M,6162
+geney/utils/spliceai_utils.py,sha256=xju1ObxQiQ_uoca-LxS0LpeIrqPez8-r9JNnwwoxZpk,4541
+geney/utils/splicing_utils.py,sha256=vPCGnCPR1ooEZEHR79yFHLmRQXEJHXEQjjxpBR-YWOs,20635
 geney/utils/utils.py,sha256=m51Vd0cEbrcIHo6_8BAuI9YSPcKRs22e5LfVd2Qj6Is,2181
-geney-1.4.2.dist-info/METADATA,sha256=BJlGqmWdiofdGSCLKU7Cpz0nRaqukqLZsEZKc70yk7k,989
-geney-1.4.2.dist-info/WHEEL,sha256=Kh9pAotZVRFj97E15yTA4iADqXdQfIVTHcNaZTjxeGM,110
-geney-1.4.2.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
-geney-1.4.2.dist-info/RECORD,,
+geney-1.4.4.dist-info/METADATA,sha256=jWA_O5yFvCaCLnzqq2hDYjpxMXGAwkA9PWhfMHaxzF0,989
+geney-1.4.4.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
+geney-1.4.4.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
+geney-1.4.4.dist-info/RECORD,,

{geney-1.4.2.dist-info → geney-1.4.4.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: bdist_wheel (0.45.1)
+Generator: setuptools (75.1.0)
 Root-Is-Purelib: true
 Tag: py2-none-any
 Tag: py3-none-any