registerSlide: Register the Position of a Slide in a Notched Block

In TobinH/microTransit: Quantitative Polarized Light Imaging and Analysis Tools

Register the Position of a Slide in a Notched Block

Description

registerSlide uses notch measurements on a slide, together with the notch information from a block object (see make.block) to position an arbitrarily cut section within the reference frame of a machined embedded block.

Usage

registerSlide(block, D1, F1, D2, F2)

Arguments

block	A histoBlock object created by make.block.
D1, D2	Distance on slide from far edge of longitudinal notch to near edge of oblique notch, for upper/lower face, respectively.
F1, F2	Distance on slide from near edge to far edge of the oblique notch.

Details

This function works together with makeBlock to provide the information necessary to position a section back within the volume of its parent block, e.g. for importing histological images into a microCT volume.

Value

A list specifying (1) the z-axis position of the slide's centroid "Z", and (2-4) an Euler rotation for the slide's orientation relative to the block's front face, specified as "Euler.X", "Euler.Y", and "Euler.Angle".

See Also

Other Section Registration Functions: makeBlock()

TobinH/microTransit documentation built on Jan. 19, 2024, 5:21 a.m.