Python getTotalFNKmerNotFoundの例

コード例 #1

ファイル: compareKmers.py プロジェクト: shwetabhandare/PySG

def CompareTextMotifKmers(realKmerDict, predictedKmers, posFile, negFile):
	numFP = numTP = numFN = 0	
	if len(predictedKmers) == 0:
		numFN = compareKmerCommon.getTotalFNKmerNotFound(realKmerDict);
	else:
		numTP, numFP, numFN = compareKmerCommon.GetTotalNumbers(realKmerDict,  posFile, negFile, None, None, predictedKmers)
	return numTP, numFP, numFN;

コード例 #2

ファイル: compareKmers.py プロジェクト: shwetabhandare/PySG

def ComparePSSMKmers(realKmerDict, predictedDremeFile, posFile, negFile, pssmList):
	numTP = numFP = numFN = 0;
	if len(pssmList) == 0:
		numFP = compareKmerCommon.getTotalFNKmerNotFound(realKmerDict);		
	else:
		numTP, numFP, numFN = compareKmerCommon.GetTotalNumbers(realKmerDict, posFile, negFile, pssmList, None, None)

	return numTP, numFP, numFN;

コード例 #3

ファイル: test_compare_kmers.py プロジェクト: shwetabhandare/PySG

	def test_getTotalFPWhenPredictedIsEmpty(self):
		realKmerDict  = dict();

		realKmerDict['0'] = ['ATTTA', 10]
		realKmerDict['1'] = ['ATTTTA', 10]
		realKmerDict['2'] = ['ATTTTTA', 10]
		realKmerDict['3'] = ['ATTTAAAA', 10]

		totalFN = compareKmerCommon.getTotalFNKmerNotFound(realKmerDict);
		self.assertEqual(totalFN, 26);

コード例 #4

ファイル: compareKmers.py プロジェクト: shwetabhandare/PySG

def ComparePWMKmers(realKmerDict, predictedKspectrumFile, posFile, negFile, pssmList):
	numFP = numTP = numFN = 0	


	pwm = splitKmerInDict.GetKspectrumPWM(predictedKspectrumFile);
	if len(pwm) == 0:
		numFP = compareKmerCommon.getTotalFNKmerNotFound(realKmerDict);		
	else:
		numTP, numFP, numFN = compareKmerCommon.GetTotalNumbers(realKmerDict, posFile, negFile, None, pwm, None)

	return numTP, numFP, numFN;

コード例 #5

ファイル: compareKmers.py プロジェクト: shwetabhandare/PySG

def CompareKspectrumPredictedKmers(realCsvFile, predictedKspectrumFile, posFile, negFile, numKmers):
	realKmerDict = parseRealKmers.GetRealKmerDict(realCsvFile);
	predictedKmerDict	= parseKspectrum.FindKspectrumKmers(predictedKspectrumFile, numKmers);
	numTP = 0
	numFP = 0
	numFN = 0

	if len(predictedKmerDict) == 0:
		numFP = compareKmerCommon.getTotalFNKmerNotFound(realKmerDict);		
	else:
		numTP, numFP, numFN = compareKmerCommon.GetTotalNumbers(realKmerDict, posFile, negFile, None, None, None, predictedKmerDict)

	return numTP, numFP, numFN