geney 1.3.31__py2.py3-none-any.whl → 1.3.33__py2.py3-none-any.whl

geney/splicing_utils.py

@@ -403,6 +403,7 @@ def process_pairwise_epistasis(mids, engine='pangolin', fprint=False, db=None):
                         m2.get(k, {}).get('reference') or
                         mb.get(k, {}).get('reference')
                 )
+
                 if ref_val is None:
                     ref_val = 0
 
@@ -434,11 +435,9 @@ def process_pairwise_epistasis(mids, engine='pangolin', fprint=False, db=None):
                     cummulative_deltas.append(max((deltab - delta1, deltab - delta2), key=abs))
 
                 if (0.4 <= ref_val <= 0.75) and (
-                        ((delta1 > 0.25 or delta2 > 0.25) and deltab < 0.25) or
-                        (delta1 < 0.25 and delta2 < 0.25 and deltab > 0.25)
-                ) and (
-                        abs(delta1 - deltab) > 0.3 or
-                        abs(delta2 - deltab) > 0.3
+                        delta1 > 0.3 or
+                        delta2 > 0.3 or
+                        deltab > 0.3
                 ):
                     increased_canonical_splicing = True
 
@@ -523,6 +522,8 @@ class Missplicing:
         """
         if threshold is None:
             threshold = self.threshold
+        if threshold is None:
+            threshold = 0
 
         return {
             event: {

{geney-1.3.31.dist-info → geney-1.3.33.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: geney
-Version: 1.3.31
+Version: 1.3.33
 Summary: A Python package for gene expression modeling.
 Home-page: https://github.com/nicolaslynn/geney
 Author: Nicolas Lynn

{geney-1.3.31.dist-info → geney-1.3.33.dist-info}/RECORD

@@ -16,7 +16,7 @@ geney/pangolin_utils.py,sha256=i5j5vEMCWOTIa1mRP2377BAhlUFZjHBzTQBips4lA_4,2934
 geney/power_utils.py,sha256=MehZFUdkJ2EFUot709yPEDxSkXmH5XevMebX2HD768A,7330
 geney/seqmat_utils.py,sha256=wzb3PX5it5bpIFQvcxyzlxfhoJTbHHbsjg0rzh05iVs,19753
 geney/spliceai_utils.py,sha256=PFIhTK8Ihrj-cv5tgRN0UFPYEmC4uxtqXSP9bBLnZRM,3077
-geney/splicing_utils.py,sha256=Fd-T5KC3swuUzrxg0YKnUYQX-J98yWuvrsyzJHM3Rus,38651
+geney/splicing_utils.py,sha256=GFqmGZ-lK5oDook4FZun-mAq-oqZGg6dHZaOdp38B4M,38540
 geney/survival_utils.py,sha256=KnAzEviMuXh6SnVXId9PgsFLSbgkduTvYoIthxN7FPA,6886
 geney/tcga_utils.py,sha256=D_BNHm-D_K408dlcJm3hzH2c6QNFjQsKvUcOPiQRk7g,17612
 geney/tis_utils.py,sha256=2makfGfVlDFVIbxzXE85AY9jmAjcNmxyIAxjvkRA5LY,7396
@@ -25,7 +25,7 @@ geney/translation_initiation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NM
 geney/translation_initiation/tis_utils.py,sha256=AF3siFjuQH-Rs44EV-80zHdbxRMvN4woLFSHroWIETc,4448
 geney/translation_initiation/resources/kozak_pssm.json,sha256=pcd0Olziutq-6H3mFWDCD9cujQ_AlZO-iiOvBl82hqE,1165
 geney/translation_initiation/resources/tis_regressor_model.joblib,sha256=IXb4DUDhJ5rBDKcqMk9zE3ECTZZcdj7Jixz3KpoZ7OA,2592025
-geney-1.3.31.dist-info/METADATA,sha256=4B9E4JtQM_t7CiVr02rbZmZgnFPbJE-REz9441hDGI8,990
-geney-1.3.31.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
-geney-1.3.31.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
-geney-1.3.31.dist-info/RECORD,,
+geney-1.3.33.dist-info/METADATA,sha256=d_U3GL4uOMgpg2QxKJPteTcWlg-VEPnSe03RByF0JZY,990
+geney-1.3.33.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
+geney-1.3.33.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
+geney-1.3.33.dist-info/RECORD,,