nanslice.slice_func module

slice_func.py

Functions for manipulating ‘slices’/images (or (X, Y, 3) arrays)

nanslice.slice_func.blend(img_under, img_over, img_alpha)

Blend together two images using an alpha channel image

Parameters:

• img_under – The base image (underneath the overlay)
• img_over – The overlay image
• img_alpha – Transparency/alpha value to use when blending

nanslice.slice_func.blur(img, sigma=1)

Blur an image with a Gaussian kernel

Parameters:

• img – The image to blur
• sigma – The FWHM of the Gaussian kernel, in voxels

nanslice.slice_func.checkerboard(img1, img2, square_size=16)

Combine two images in a checkerboard pattern, useful for checking image registration quality. Idea stolen from @ramaana_ on Twitter

nanslice.slice_func.colorize(data, cmap, clims=None)

Apply a colormap to grayscale data. Takes an (X, Y) array and returns an (X, Y, 3) array

Parameters:

• data – The 2D scalar (X, Y) array to colorize
• cmap – Any valid matplotlib colormap or colormap name
• clims – The limits for the colormap

nanslice.slice_func.mask(img, img_mask, back=array([0, 0, 0]))

Mask out sections of one image using another

Parameters:

• img – The image to be masked
• img_mask – The mask image
• back – Background value

nanslice.slice_func.scale_clip(data, lims)

Scale an image to fill the range 0-1 and clip values that fall outside that range

Parameters:

• data – The image data array
• lims – The limits to scale betwee