Function reference • MuscleTernary

Working with stl meshes

Reading meshes and working with centroids

Functions to import meshes and calculate centroids and sizes (areas)

read_stl(): Import STL mesh

centroid_location(): Calculate centroid location

centroid_size(): Calculate centroid size for an stl file

stl_area(): Calculate area of an stl mesh

PCSA and muscle force estimation

Functions for estimating PCSA from centroid data and muscle force from PCSA estimates

pcsa(): Estimate PCSA from from a pair of muscle attachment stl meshes.

muscle_force(): Estimate muscle force

Making ternary plots

Functions used to generate ternary plots

coords_to_ternary(): Process coordinates data.frame

interpolate_ternary(): Interpolate between two point in a coordinates object.

muscle_color_map(): Holliday Lab Muscle Color Map

muscle_fill_map(): Holliday Lab Muscle Color Map

means_by_muscle(): Means by Muscle

Working with Xfiber data

Functions to read and process data from Avizo Xfiber suitable for passing as the coords parameter to coords_to_ternary()

read_xfiber(): Import from Avizo xfiber Excel

read_xfiber_xml(): Import from Avizo xfiber XML

find_track_ends(): Reduce Xfiber tracks to vectors connecting the two endpoints

Generating Maya mel scripts

Functions for outputting mel scripts to create model + vector arrows in Maya.

make_mel(): Write mel file

xfiber_to_maya(): Generate Maya mel file from xfiber tracing

geom_shiftedtext(): geom for labeling geom_points

Utility functions

Functions that are not normally called directly, but which may be useful and are thus documented and exported.

xprod(): Cross-product of two 3d vectors

make_unit_vector(): Create a unit vector from a given vector

relative_proportion(): Calculate the relative proportion of the items of a given vector

write_arrows(): Write Maya arrows code