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prog3_ksPercentile.py
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prog3_ksPercentile.py
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import json
import numpy as np
SAMPLING_SIZE=100000
def jsonToDict(json_str):
json_data = json.loads(json_str)
return json_data
def ks_loci(ks, ndd_keys):
loci = 0
ks = float(ks)
for item in ndd_keys:
tmp = float(item)
if( ks <= tmp):
loci = item
break
return loci
ndFile = 'E:/evolutinoarypattern/RMB2_B10.freebayes_snps/RMB2_B10.KSHist.csv'
ksFile = 'E:/evolutinoarypattern/RMB2_B10.freebayes_snps/RMB2_B10.ks.csv'
ndLines = open(ndFile, 'r')
ksLines = open(ksFile, 'r')
oFileName = 'E:/evolutinoarypattern/RMB2_B10.freebayes_snps/RMB2_B10.pVal.csv'
oFile = open(oFileName, 'w')
for ks in ksLines:
nd = ndLines.readline()
ndd = jsonToDict(nd)
ndd_keys = list(ndd.keys())
loci = ks_loci(ks, ndd_keys)
if ( loci == 0 ):
res = 0
else:
start =ndd_keys.index(loci)
val = 0
for i in range(start, len(ndd_keys)):
val += ndd[ ndd_keys[i] ]
res = val / SAMPLING_SIZE
oFile.write( str(res) + '\n')
oFile.close()