geney 1.3.75__py2.py3-none-any.whl → 1.3.76__py2.py3-none-any.whl

geney/oncosplice.py

@@ -284,13 +284,14 @@ def summarize_missplicing_event(pes, pir, es, ne, ir):
         return '-'
 
 def missense_effect(r, v):
-    if len(r.protein) != len(v.protein):
+    if len(r.protein) != len(v.protein) or len(r.orf) != len(v.orf):
         return '', ''
 
     for i, (x, y) in enumerate(zip(r.protein, v.protein)):
         if x != y:
             aa_change = f'{x}>{y}'
-            codon_change = f'{r.orf[i*3:i*3+3]}>{v.orf[i*3:i*3+3]}'
+            p = i*3
+            codon_change = f'{r.orf.seq[p:p+3]}>{v.orf.seq[p:p+3]}'
             return aa_change, codon_change
     return '', ''
 

{geney-1.3.75.dist-info → geney-1.3.76.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: geney
-Version: 1.3.75
+Version: 1.3.76
 Summary: A Python package for gene expression modeling.
 Home-page: https://github.com/nicolaslynn/geney
 Author: Nicolas Lynn

{geney-1.3.75.dist-info → geney-1.3.76.dist-info}/RECORD

@@ -11,7 +11,7 @@ geney/graphic_utils.py,sha256=oMsBpB9YeEn96gGpKh4MmtagJffWZbk-xPrIwHvkFhA,11016
 geney/gtex_utils.py,sha256=asL2lHyU5KsbWpV096vkf1Ka7hSo_RRfZqw7p5nERmE,1919
 geney/immune_utils.py,sha256=ZRni5ttrhpYBnmNr0d0ZatIbNPYs4nmQuoUO00SpsS4,5271
 geney/mutation_utils.py,sha256=C_kv2MB_L8LlhX3W2ooXjJ3uDoJ8zX1WeDtZKoBZJkI,1547
-geney/oncosplice.py,sha256=OptwyMhTaL5ptmdPxyuC2Iwm4feQf0n1ZjN0o9hwZ1w,32051
+geney/oncosplice.py,sha256=GN2LwACp1mr90UV7dxJJOVw75EfiNk0sU8jFdUgs9AE,32099
 geney/pangolin_utils.py,sha256=9jdBXlOcRaUdfi-UpUxHA0AkTMZkUF-Lt7HVZ1nEm3s,2973
 geney/power_utils.py,sha256=MehZFUdkJ2EFUot709yPEDxSkXmH5XevMebX2HD768A,7330
 geney/seqmat_utils.py,sha256=wzb3PX5it5bpIFQvcxyzlxfhoJTbHHbsjg0rzh05iVs,19753
@@ -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-1.3.75.dist-info/METADATA,sha256=RJ7URjz5xQLQy1P8fISap3pWB7qdvknUp-c2Zjgtk9I,990
-geney-1.3.75.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
-geney-1.3.75.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
-geney-1.3.75.dist-info/RECORD,,
+geney-1.3.76.dist-info/METADATA,sha256=FTQEOXu8VS4PRf5bQgGSH0oALsisNa_E0TjO-vD54hA,990
+geney-1.3.76.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
+geney-1.3.76.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
+geney-1.3.76.dist-info/RECORD,,