def GeneratePlot(request):
"""
Input options from the analysis filtering html form is processed here and custom django database filtering procedures are automatically
specified. Labels for the plot are dynamically created based on the parameters included when the plotting method. The column name in the
relevant database table is specified through a django parameter to access the data relevant to this genetic analysis module.
"""
form = PlotCustomizationOptions(request.POST or None)
if request.method == 'POST':
if form.is_valid():
FilterThreshold = form.cleaned_data.get('FilterThreshold', 0)
if (form.cleaned_data.get('ArithmaticOperator',
0) == 'GreaterThan'):
return GeneticAnalysisTools.GeneratePlot.PlotData(
request,
GeneticDataRecords=MinorAllele.objects.all().filter(
MinorAlleleFrequency__gt=FilterThreshold),
GeneticAttributeName='MinorAlleleFrequency',
PlotXLabel='Minor Allele Frequency',
PlotYLabel='Number of SNPs',
PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'GreaterThanOrEqual'):
return GeneticAnalysisTools.GeneratePlot.PlotData(
request,
GeneticDataRecords=MinorAllele.objects.all().filter(
MinorAlleleFrequency__gte=FilterThreshold),
GeneticAttributeName='MinorAlleleFrequency',
PlotXLabel='Minor Allele Frequency',
PlotYLabel='Number of SNPs',
PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'LessThan'):
return GeneticAnalysisTools.GeneratePlot.PlotData(
request,
GeneticDataRecords=MinorAllele.objects.all().filter(
MinorAlleleFrequency__lt=FilterThreshold),
GeneticAttributeName='MinorAlleleFrequency',
PlotXLabel='Minor Allele Frequency',
PlotYLabel='Number of SNPs',
PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'LessThanOrEqual'):
return GeneticAnalysisTools.GeneratePlot.PlotData(
request,
GeneticDataRecords=MinorAllele.objects.all().filter(
MinorAlleleFrequency__lte=FilterThreshold),
GeneticAttributeName='MinorAlleleFrequency',
PlotXLabel='Minor Allele Frequency',
PlotYLabel='Number of SNPs',
PlotTitle='Distribution of SNP Minor Allele Frequencies')
else:
return GeneticAnalysisTools.GeneratePlot.PlotData(
request,
GeneticDataRecords=MinorAllele.objects.all(),
GeneticAttributeName='MinorAlleleFrequency',
PlotXLabel='Minor Allele Frequency',
PlotYLabel='Number of SNPs',
PlotTitle='Distribution of SNP Minor Allele Frequencies')
def ResultsTable(request):
"""
This method enables the code that generates the table of genetic experiment results to be accessed and filtered through user submitted form data.
"""
form = PlotCustomizationOptions(request.POST or None)
if request.method == 'POST':
if form.is_valid():
FilterThreshold = form.cleaned_data.get('FilterThreshold', 0)
if (form.cleaned_data.get('ArithmaticOperator', 0)=='GreaterThan'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(request, TableTitle='___________Top SNPs___________', TableColumnSummaryDescriptions=('SNP ID', 'Minor Allele Frequency'), TableColumnData=MinorAllele.objects.all().filter(MinorAlleleFrequency__gt=FilterThreshold).order_by('-MinorAlleleFrequency')[:40], TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='GreaterThanOrEqual'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(request, TableTitle='___________Top SNPs___________', TableColumnSummaryDescriptions=('SNP ID', 'Minor Allele Frequency'), TableColumnData=MinorAllele.objects.all().filter(MinorAlleleFrequency__gte=FilterThreshold).order_by('-MinorAlleleFrequency')[:40], TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='LessThan'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(request, TableTitle='___________Top SNPs___________', TableColumnSummaryDescriptions=('SNP ID', 'Minor Allele Frequency'), TableColumnData=MinorAllele.objects.all().filter(MinorAlleleFrequency__lt=FilterThreshold).order_by('-MinorAlleleFrequency')[:40], TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='LessThanOrEqual'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(request, TableTitle='___________Top SNPs___________', TableColumnSummaryDescriptions=('SNP ID', 'Minor Allele Frequency'), TableColumnData=MinorAllele.objects.all().filter(MinorAlleleFrequency__lte=FilterThreshold).order_by('-MinorAlleleFrequency')[:40], TableColumnNames=('SNP', 'MinorAlleleFrequency'))
else: return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(request, TableTitle='___________Top SNPs___________', TableColumnSummaryDescriptions=('SNP ID', 'Minor Allele Frequency'), TableColumnData=MinorAllele.objects.all().order_by('-MinorAlleleFrequency')[:40], TableColumnNames=('SNP', 'MinorAlleleFrequency'))
def GeneratePlot(request):
"""
Input options from the analysis filtering html form is processed here and custom django database filtering procedures are automatically
specified. Labels for the plot are dynamically created based on the parameters included when the plotting method. The column name in the
relevant database table is specified through a django parameter to access the data relevant to this genetic analysis module.
"""
form = PlotCustomizationOptions(request.POST or None)
if request.method == 'POST':
if form.is_valid():
FilterThreshold = form.cleaned_data.get('FilterThreshold', 0)
if (form.cleaned_data.get('ArithmaticOperator', 0)=='GreaterThan'):
return GeneticAnalysisTools.GeneratePlot.PlotData(request, GeneticDataRecords=MinorAllele.objects.all().filter(MinorAlleleFrequency__gt=FilterThreshold), GeneticAttributeName='MinorAlleleFrequency', PlotXLabel='Minor Allele Frequency', PlotYLabel='Number of SNPs', PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='GreaterThanOrEqual'):
return GeneticAnalysisTools.GeneratePlot.PlotData(request, GeneticDataRecords=MinorAllele.objects.all().filter(MinorAlleleFrequency__gte=FilterThreshold), GeneticAttributeName='MinorAlleleFrequency', PlotXLabel='Minor Allele Frequency', PlotYLabel='Number of SNPs', PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='LessThan'):
return GeneticAnalysisTools.GeneratePlot.PlotData(request, GeneticDataRecords=MinorAllele.objects.all().filter(MinorAlleleFrequency__lt=FilterThreshold), GeneticAttributeName='MinorAlleleFrequency', PlotXLabel='Minor Allele Frequency', PlotYLabel='Number of SNPs', PlotTitle='Distribution of SNP Minor Allele Frequencies')
elif (form.cleaned_data.get('ArithmaticOperator', 0)=='LessThanOrEqual'):
return GeneticAnalysisTools.GeneratePlot.PlotData(request, GeneticDataRecords=MinorAllele.objects.all().filter(MinorAlleleFrequency__lte=FilterThreshold), GeneticAttributeName='MinorAlleleFrequency', PlotXLabel='Minor Allele Frequency', PlotYLabel='Number of SNPs', PlotTitle='Distribution of SNP Minor Allele Frequencies')
else: return GeneticAnalysisTools.GeneratePlot.PlotData(request, GeneticDataRecords=MinorAllele.objects.all(), GeneticAttributeName='MinorAlleleFrequency', PlotXLabel='Minor Allele Frequency', PlotYLabel='Number of SNPs', PlotTitle='Distribution of SNP Minor Allele Frequencies')
def ResultsTable(request):
"""
This method enables the code that generates the table of genetic experiment results to be accessed and filtered through user submitted form data.
"""
form = PlotCustomizationOptions(request.POST or None)
if request.method == 'POST':
if form.is_valid():
FilterThreshold = form.cleaned_data.get('FilterThreshold', 0)
if (form.cleaned_data.get('ArithmaticOperator',
0) == 'GreaterThan'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(
request,
TableTitle='___________Top SNPs___________',
TableColumnSummaryDescriptions=('SNP ID',
'Minor Allele Frequency'),
TableColumnData=MinorAllele.objects.all().filter(
MinorAlleleFrequency__gt=FilterThreshold).order_by(
'-MinorAlleleFrequency')[:40],
TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'GreaterThanOrEqual'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(
request,
TableTitle='___________Top SNPs___________',
TableColumnSummaryDescriptions=('SNP ID',
'Minor Allele Frequency'),
TableColumnData=MinorAllele.objects.all().filter(
MinorAlleleFrequency__gte=FilterThreshold).order_by(
'-MinorAlleleFrequency')[:40],
TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'LessThan'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(
request,
TableTitle='___________Top SNPs___________',
TableColumnSummaryDescriptions=('SNP ID',
'Minor Allele Frequency'),
TableColumnData=MinorAllele.objects.all().filter(
MinorAlleleFrequency__lt=FilterThreshold).order_by(
'-MinorAlleleFrequency')[:40],
TableColumnNames=('SNP', 'MinorAlleleFrequency'))
elif (form.cleaned_data.get('ArithmaticOperator',
0) == 'LessThanOrEqual'):
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(
request,
TableTitle='___________Top SNPs___________',
TableColumnSummaryDescriptions=('SNP ID',
'Minor Allele Frequency'),
TableColumnData=MinorAllele.objects.all().filter(
MinorAlleleFrequency__lte=FilterThreshold).order_by(
'-MinorAlleleFrequency')[:40],
TableColumnNames=('SNP', 'MinorAlleleFrequency'))
else:
return GeneticAnalysisTools.GenerateResultsTable.GenerateResultsTable(
request,
TableTitle='___________Top SNPs___________',
TableColumnSummaryDescriptions=('SNP ID',
'Minor Allele Frequency'),
TableColumnData=MinorAllele.objects.all().order_by(
'-MinorAlleleFrequency')[:40],
TableColumnNames=('SNP', 'MinorAlleleFrequency'))
