GoodFibes (version 0.1.13)

Detection and Reconstruction of Muscle Fibers from diceCT Image Data

Description

Reconstruction of muscle fibers from image stacks using textural analysis. Includes functions for tracking, smoothing, cleaning, plotting and exporting muscle fibers. Also calculates basic fiber properties (e.g., length and curvature).

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Version

Install

install.packages('GoodFibes')

Monthly Downloads

227

Version

0.1.13

License

GPL (>= 2)

Maintainer

J. Arbour

Last Published

February 19th, 2026

Functions in GoodFibes (0.1.13)

muscle.plot

Plot a single muscle fiber

good.fibes

Automated detection of muscle fibers from diceCT scans

sequencePlot

Plot the path of a muscle fiber generated using good.fibes

hemisphere.points

Finding end points of possible paths

quality.check

Quality testing of possible muscle fibers detected by good.fibes

pointsGenerator

Line points generator

thresholdPlot

Plot image from diceCT stack using thresholding

GoodFibes-package

tools:::Rd_package_title("GoodFibes")

check.overlap

Check if muscle fibers are redundant

equalize.stack

Automated histogram equalization of image state

crop.stack

Automated imaging cropping

fibers.smoothed

Smoothing of estimated fiber paths

fuse.fibers.auto

Automated repeated fusing of fiber paths

fiber.angle

Experimental! Calculating the orientation of muscle fibers

fiber.lengths

Calculated the length of smoothed muscle fibers

fiber.curve

Calculate the relative curvature of muscle fibers

color.scale

A simple wrapper to create colors for a continuous variable

fuse.fibers

Fuse incomplete fibers

muscle.plot.multi

Plot multi muscle fibers with a muscle outline

ant.final

Ant muscle fibers finalized

ant.raw

Raw ant muscle fibers

boundary.check

Check if muscle fiber is close to boundary of muscle

muscle.plot.stl

Plot and export muscle fibers to stl

get.whites

An internal function determining grayscale values