ImageThresholder¶

Class to threshold an image and plot necessary figures related to thresholding

class munge.ImageThresholder.ImageThresholder(data_element, n_components=2, method='gmm', postprocess=False)¶

Bases: object

ImageThresholder class can be instantiated with the following args

Parameters:	data_element – Instance of `DataElement` class n_components – Number of components to the model fit

dilate(thresholded_img)¶

Performs binary dilation on the given image using a disk-shaped structural element of arbitrary radius 3.

Parameters:	thresholded_img – thresholded image
Returns:	dilated image

get_jaccard_coeff()¶

Gets the jaccard similarity co-efficient of the reference and the detected region

Returns:	jaccard coefficient

get_thresholded_contour_mask()¶

Thresholds the o-contour region and returns a mask

Returns:	Boolean mask containing the thresholded image

plot_model_fit(filename=None)¶

Plots the histogram of the o-contour region with the gaussians that were used to fit the model and the selected threshold value

Parameters:	filename – File path to save the plot

plot_thresholding_result(filename=None)¶

Plots the thresholded region along with the ground truth region overlaid in different colors

Parameters:	filename – File path to save the plot

Munge