geney 1.3.13__py2.py3-none-any.whl → 1.3.14__py2.py3-none-any.whl

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Files changed (5) hide show
  1. geney/splicing_utils.py +5 -3
  2. {geney-1.3.13.dist-info → geney-1.3.14.dist-info}/METADATA +1 -1
  3. {geney-1.3.13.dist-info → geney-1.3.14.dist-info}/RECORD +5 -5
  4. {geney-1.3.13.dist-info → geney-1.3.14.dist-info}/WHEEL +0 -0
  5. {geney-1.3.13.dist-info → geney-1.3.14.dist-info}/top_level.txt +0 -0
geney/splicing_utils.py CHANGED
@@ -388,6 +388,8 @@ def process_pairwise_epistasis(mids, engine='pangolin', fprint=False):
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  m2.get(k, {}).get('reference') or
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  mb.get(k, {}).get('reference')
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  )
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+ if ref_val is None:
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+ ref_val = 0
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  # Compute deltas
@@ -415,12 +417,12 @@ def process_pairwise_epistasis(mids, engine='pangolin', fprint=False):
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  flag['cummulative'] += 1
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  cummulative_deltas.append(max((deltab - delta1, deltab - delta2), key=abs))
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- if ((0.4 <= ref_val) <= 0.75) and (
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+ if (0.4 <= ref_val <= 0.75) and (
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  ((delta1 > 0.25 or delta2 > 0.25) and deltab < 0.25) or
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  (delta1 < 0.25 and delta2 < 0.25 and deltab > 0.25)
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  ) and (
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- abs(delta1 - deltab) > 0.25 or
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- abs(delta2 - deltab) > 0.25
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+ abs(delta1 - deltab) > 0.3 or
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+ abs(delta2 - deltab) > 0.3
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  ):
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  increased_canonical_splicing = True
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{geney-1.3.13.dist-info → geney-1.3.14.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: geney
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- Version: 1.3.13
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+ Version: 1.3.14
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  Summary: A Python package for gene expression modeling.
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  Home-page: https://github.com/nicolaslynn/geney
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  Author: Nicolas Lynn
{geney-1.3.13.dist-info → geney-1.3.14.dist-info}/RECORD RENAMED
@@ -16,7 +16,7 @@ geney/pangolin_utils.py,sha256=i5j5vEMCWOTIa1mRP2377BAhlUFZjHBzTQBips4lA_4,2934
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  geney/power_utils.py,sha256=MehZFUdkJ2EFUot709yPEDxSkXmH5XevMebX2HD768A,7330
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  geney/seqmat_utils.py,sha256=wzb3PX5it5bpIFQvcxyzlxfhoJTbHHbsjg0rzh05iVs,19753
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  geney/spliceai_utils.py,sha256=PFIhTK8Ihrj-cv5tgRN0UFPYEmC4uxtqXSP9bBLnZRM,3077
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- geney/splicing_utils.py,sha256=mBZGTF57BZ3caTnkQ_8zMhv7z0iRPrGKBSmjeDnTiUc,32222
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+ geney/splicing_utils.py,sha256=OLes_xEoD5RZvcxyc8kwlUlWpTbJgl9AgA2PFRyOtdE,32286
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  geney/survival_utils.py,sha256=KnAzEviMuXh6SnVXId9PgsFLSbgkduTvYoIthxN7FPA,6886
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  geney/tcga_utils.py,sha256=D_BNHm-D_K408dlcJm3hzH2c6QNFjQsKvUcOPiQRk7g,17612
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  geney/tis_utils.py,sha256=2makfGfVlDFVIbxzXE85AY9jmAjcNmxyIAxjvkRA5LY,7396
@@ -25,7 +25,7 @@ geney/translation_initiation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NM
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  geney/translation_initiation/tis_utils.py,sha256=AF3siFjuQH-Rs44EV-80zHdbxRMvN4woLFSHroWIETc,4448
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  geney/translation_initiation/resources/kozak_pssm.json,sha256=pcd0Olziutq-6H3mFWDCD9cujQ_AlZO-iiOvBl82hqE,1165
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  geney/translation_initiation/resources/tis_regressor_model.joblib,sha256=IXb4DUDhJ5rBDKcqMk9zE3ECTZZcdj7Jixz3KpoZ7OA,2592025
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- geney-1.3.13.dist-info/METADATA,sha256=yi0VHNzHaCHWqKRpAMHtF4tgWICSO0uYi1TJMDq5BIw,971
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- geney-1.3.13.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
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- geney-1.3.13.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
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- geney-1.3.13.dist-info/RECORD,,
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+ geney-1.3.14.dist-info/METADATA,sha256=fdwqYA-nm1pUEIeZIECpRZ0oEjPyWKIGuNSIuwy3_v4,971
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+ geney-1.3.14.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
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+ geney-1.3.14.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
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+ geney-1.3.14.dist-info/RECORD,,
{geney-1.3.13.dist-info → geney-1.3.14.dist-info}/WHEEL RENAMED
File without changes