def saveSummaryTable(self, filename, statsTestResults, sampleName1,
sampleName2, coverage):
tableData = statsTestResults.tableData(True)
# update table summarizing statistical results
oneMinAlphaStr = str((1.0 - coverage))
tableHeadings = list(statsTestResults.profile.hierarchyHeadings)
tableHeadings += [sampleName1, sampleName2]
tableHeadings += ['Parent seq. 1', 'Parent seq. 2']
tableHeadings += ['Rel. freq. 1 (%)', 'Rel. freq. 2 (%)']
tableHeadings += ['p-values', 'p-values (corrected)']
tableHeadings += ['Effect size']
tableHeadings += [str(coverage * 100) + '% lower CI']
tableHeadings += [str(coverage * 100) + '% upper CI']
tableHeadings += ['Power (alpha = ' + oneMinAlphaStr + ')']
tableHeadings += [
'Equal sample size (alpha = ' + oneMinAlphaStr + '; power = 0.80)'
]
tableData = SortTableStrCol(tableData, 0)
fout = open(filename, 'w')
for heading in tableHeadings:
fout.write(heading + '\t')
fout.write('\n')
for row in tableData:
for entry in row:
fout.write(str(entry) + '\t')
fout.write('\n')
fout.close()
def saveSummaryTable(self, filename, statsTestResults):
tableData, tableHeadings = statsTestResults.tableData(True)
tableData = SortTableStrCol(tableData, 0)
fout = open(filename, 'w')
for heading in tableHeadings:
fout.write(heading + '\t')
fout.write('\n')
for row in tableData:
for entry in row:
fout.write(str(entry) + '\t')
fout.write('\n')
fout.close()
def sort(self, Ncol, order):
'''
Sort table by given column number.
'''
if len(self.arraydata) == 0:
return
self.emit(QtCore.SIGNAL("layoutAboutToBeChanged()"))
dataIsNumeric = isNumber(self.arraydata[0][Ncol])
if dataIsNumeric:
self.arraydata = sorted(self.arraydata , key = operator.itemgetter(Ncol))
else:
self.arraydata = SortTableStrCol(self.arraydata, Ncol)
if order == QtCore.Qt.DescendingOrder:
self.arraydata.reverse()
self.emit(QtCore.SIGNAL("layoutChanged()"))
