growth.dist: Calculate growth using a variety of measurement techniques

In MikkoVihtakari/sclero: Measure Growth Patterns and Align Sampling Spots in Photographs

Calculate growth using a variety of measurement techniques

Description

Calculates growth from rawDist rawDist objects and provides a range of results depending on the type of the sample.

Usage

growth.dist(rawDist, coord.type = "scaled", type = "auto")

Arguments

rawDist	a rawDist object for which the alignment should be done.
coord.type	A character or numeric argument defining the coordinate type to do the calculations on. Alternatives: "scaled" or 1. Only scaled coordinates. "original" or any other character/number. Only original ImageJ ROI coordinates.
type

Details

This function is still under developemt and may not work as intended.

Value

A list of class "growthDist". The first element ($data) contains a data.frame of growth measurements. The $id column gives the order of growth increments from the start point defined by the main axis. The $gap column gives the name of growth lines between which the growth is measured. Following columns give the growth measurements in units defined by the user in read.ijdata function (see the scale and unit arguments). The columns denoted as .pr give the percentage growth as compared to estimated total growth in the sample. The second list element contains spatstat segmented line (psp) patterns of the various growth measurement methods. List elements with NULL values were not applicable for the sample type. Abbreviations for measurement types are given in parenthesis. The types are:

• $main (main).

• $manual (man). Only applicable for cross section types.

• $caliber (cal). Only applicable for along section types.

• $maximum (max).

• $maximum.along.x1 (maxx1). Only applicable for cross section types.

• $maximum.along.x2 (maxx2). Only applicable for cross section types.

• $guided.maximum (maxg). Only applicable for cross section types.

• $minimum (min). Only applicable for cross section types.

• $guided.minimum (ming). Only applicable for cross section types.

• $direct (dire). Only applicable for along section types.

See Also

read.ijdata for reading zip files containing ImageJ ROIs. convert.ijdata for converting the coordinate information to spatstat point patterns.

MikkoVihtakari/sclero documentation built on March 21, 2023, 11:48 a.m.