def colocalization(self):
imgR = self.Images[0].npimage
imgG = self.Images[1].npimage
self.m_colocalizationHeatmap = colocalizationDetection.coloc(imgR,imgG)
#Histogram = colocalizationDetection.getAngleHistogram(imgR, imgG, self.m_dims)
pearsonCoeff = colocalizationDetection.calcPearsonCorrelationCoeff(imgR, imgG)
MR, MG = colocalizationDetection.calcMandersColocalizationCoeffs(imgR, imgG)
overlap = colocalizationDetection.calcOverlapCoeff(imgR, imgG)
self.recalculateResult()
def colocalization(self):
self.main_window.statusBar().showMessage('beginning colocalization calculations')
imgR = self.m_npimages[0]
imgG = self.m_npimages[1]
#worker.smooth_image_according_to_heatmatrix(imgG, self.heatmatrix, self.m_factor)
#Histogram = colocalizationDetection.getAngleHistogram(imgR, imgG, self.m_dims)
pearsonCoeff = colocalizationDetection.calcPearsonCorrelationCoeff(imgR, imgG)
MR, MG = colocalizationDetection.calcMandersColocalizationCoeffs(imgR, imgG)
overlap = colocalizationDetection.calcOverlapCoeff(imgR, imgG)
message='Pearson = %.3f '%pearsonCoeff+' Manders Green = %.3f '%MG+' Manders Red = %.3f '%MR+' overlap coeff= %.3f '%overlap
self.main_window.statusBar().showMessage(message)
#self.m_colocalizationHeatmap = colocalizationDetection.createColocHeatmap(imgR,imgG)
#a= colocalizationDetection.coordinateBasedColocalization2(imgR,imgG)
self.m_colocalizationHeatmap.append(colocalizationDetection.CBC(self.m_coords[0], self.m_coords[1], self.m_dims[0], self.m_factor, self.m_dims[0][3]))
self.m_colocalizationHeatmap.append(colocalizationDetection.CBC(self.m_coords[1], self.m_coords[0], self.m_dims[0], self.m_factor, self.m_dims[0][3]))
self.toggleColocalizationHeatmap()
self.recalculateResult()
def colocalization(self):
self.main_window.statusBar().showMessage('beginning colocalization calculations')
imgR = self.m_npimages[0]
imgG = self.m_npimages[1]
#worker.smooth_image_according_to_heatmatrix(imgG, self.heatmatrix, self.m_factor)
if self.heatmatrix != []:
imgG = worker.smooth_image_according_to_heatmatrix_new(imgG, self.heatmatrix, self.m_factor)
#Histogram = colocalizationDetection.getAngleHistogram(imgR, imgG, self.m_dims)
pearsonCoeff = colocalizationDetection.calcPearsonCorrelationCoeff(imgR, imgG)
MR, MG = colocalizationDetection.calcMandersColocalizationCoeffs(imgR, imgG)
overlap = colocalizationDetection.calcOverlapCoeff(imgR, imgG)
self.m_colocalizationHeatmap = colocalizationDetection.createColocHeatmap(imgR,imgG)
self.m_colocalizationHeatmap = colocalizationDetection.coloc(imgR,imgG)
self.recalculateResult()
print overlap
message='Pearson = %.3f '%pearsonCoeff+' Manders Green = %.3f '%MG+' Manders Red = %.3f '%MR+' overlap coeff= %.3f '%overlap
self.main_window.statusBar().showMessage(message)