CloneSet128


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Clone
Mass
Clones in
CloneSet
Parameter
Count
Clone
Similarity
Syntax Category
[Sequence Length]
17450.969compound_stmt
Clone AbstractionParameter Bindings
Clone Instance
(Click to see clone)
Line CountSource Line
Source File
111348
Bio/PopGen/GenePop/Controller.py
211361
Bio/PopGen/GenePop/Controller.py
317404
Bio/PopGen/GenePop/Controller.py
417424
Bio/PopGen/GenePop/Controller.py
Clone Instance
1
Line Count
11
Source Line
348
Source File
Bio/PopGen/GenePop/Controller.py

    def test_pop_hz_deficiency(self,fname,enum_test = True,dememorization = 10000,batches = 20,iterations = 5000):
                                                                 
        """Hardy-Weinberg test for heterozygote deficiency.

           Returns a population iterator containg
               A dictionary[locus]=(P-val, SE, Fis-WC, Fis-RH, steps)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
        """ 
        return self._test_pop_hz_both(fname,1,".D",enum_test,dememorization,batches,iterations) 


    #1.2


Clone Instance
2
Line Count
11
Source Line
361
Source File
Bio/PopGen/GenePop/Controller.py

    def test_pop_hz_excess(self,fname,enum_test = True,dememorization = 10000,batches = 20,iterations = 5000):
                                                                 
        """Hardy-Weinberg test for heterozygote deficiency.

           Returns a population iterator containg
               A dictionary[locus]=(P-val, SE, Fis-WC, Fis-RH, steps)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
        """ 
        return self._test_pop_hz_both(fname,2,".E",enum_test,dememorization,batches,iterations) 


    #1.3 P file


Clone Instance
3
Line Count
17
Source Line
404
Source File
Bio/PopGen/GenePop/Controller.py

    def test_global_hz_deficiency(self,fname,enum_test = True,dememorization = 10000,batches = 20,iterations = 5000):
                                                                 
        """Global Hardy-Weinberg test for heterozygote deficiency.

           Returns a triple with:
             An list per population containg
               (pop_name, P-val, SE, switches)
                 Some pops have a None if the info is not available
                 SE might be none (for enumerations)
             An list per loci containg
               (locus_name, P-val, SE, switches)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
             Overall results (P-val, SE, switches)
        """ 
        return self._test_global_hz_both(fname,4,".DG",enum_test,dememorization,batches,iterations) 



    #1.5


Clone Instance
4
Line Count
17
Source Line
424
Source File
Bio/PopGen/GenePop/Controller.py

    def test_global_hz_excess(self,fname,enum_test = True,dememorization = 10000,batches = 20,iterations = 5000):
                                                                 
        """Global Hardy-Weinberg test for heterozygote excess.

           Returns a triple with:
             An list per population containg
               (pop_name, P-val, SE, switches)
                 Some pops have a None if the info is not available
                 SE might be none (for enumerations)
             An list per loci containg
               (locus_name, P-val, SE, switches)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
             Overall results (P-val, SE, switches)
        """ 
        return self._test_global_hz_both(fname,5,".EG",enum_test,dememorization,batches,iterations) 


    #2.1


Clone AbstractionParameter Count: 5Parameter Bindings

def [[#variable71aafb80]](self,fname,enum_test = True,dememorization = 10000,batches = 20,iterations = 5000):
   [[#variable71aafb00]]
  return self. [[#variable71aafa80]](fname, [[#variable71aafa20]], [[#variable71aaf920]],enum_test,dememorization,batches,iterations) 
  #2.1
  #1.5
  #1.3 P file
  #1.2
 

CloneAbstraction
Parameter Bindings
Parameter
Index
Clone
Instance
Parameter
Name
Value
11[[#71aafb80]]
test_global_hz_excess 
12[[#71aafb80]]
test_global_hz_deficiency 
13[[#71aafb80]]
test_pop_hz_excess 
14[[#71aafb80]]
test_pop_hz_deficiency 
21[[#71aafb00]]
"""Global Hardy-Weinberg test for heterozygote excess.

           Returns a triple with:
             An list per population containg
               (pop_name, P-val, SE, switches)
                 Some pops have a None if the info is not available
                 SE might be none (for enumerations)
             An list per loci containg
               (locus_name, P-val, SE, switches)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
             Overall results (P-val, SE, switches)
        """ 
22[[#71aafb00]]
"""Global Hardy-Weinberg test for heterozygote deficiency.

           Returns a triple with:
             An list per population containg
               (pop_name, P-val, SE, switches)
                 Some pops have a None if the info is not available
                 SE might be none (for enumerations)
             An list per loci containg
               (locus_name, P-val, SE, switches)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
             Overall results (P-val, SE, switches)
        """ 
23[[#71aafb00]]
"""Hardy-Weinberg test for heterozygote deficiency.

           Returns a population iterator containg
               A dictionary[locus]=(P-val, SE, Fis-WC, Fis-RH, steps)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
        """ 
24[[#71aafb00]]
"""Hardy-Weinberg test for heterozygote deficiency.

           Returns a population iterator containg
               A dictionary[locus]=(P-val, SE, Fis-WC, Fis-RH, steps)
                 Some loci have a None if the info is not available
                 SE might be none (for enumerations)
        """ 
31[[#71aafa80]]
_test_global_hz_both 
32[[#71aafa80]]
_test_global_hz_both 
33[[#71aafa80]]
_test_pop_hz_both 
34[[#71aafa80]]
_test_pop_hz_both 
41[[#71aafa20]]
5 
42[[#71aafa20]]
4 
43[[#71aafa20]]
2 
44[[#71aafa20]]
1 
51[[#71aaf920]]
".EG" 
52[[#71aaf920]]
".DG" 
53[[#71aaf920]]
".E" 
54[[#71aaf920]]
".D"