Oyster_Convert_cross_section: Function that converts XY-data of digitized cross section

In nielsjdewinter/ShellTrace: Bivalve Growth and Trace Element Accumulation Model

Description

Takes XY data of digitized growth increments in a shell cross section and converts them to a common X-axis with the correct lengths in millimeters. de Winter, N. J. (2017) <doi:10.5194/gmd-2017-137>

Usage

Oyster_Convert_cross_section(raw_data, image_length, Xstep = 0.1)

Arguments

raw_data	Numeric data frame containing the X- and Y-coordinates digitized in Adobe Illustrator or another image processing software
image_length	Measured maximum length of the area of the cross section that is represented in "raw_data"
Xstep	The step size (dx) in X-direction used to interpolate coordinates of shell increments

Details

First step in growth modelling: Converting XY data of increments to a common X-axis

Value

List of two data sets and one value:

cross_section	Digitized cross section of the shell with shell top, bottom and growth increments relative to a common X-axis
year_trace	Digitized cross section of shell increments without addition of top and bottom of the shell to the increment Y-values
lengthfactor	Factor of actual shell length relative to shell length in cross section
incr_matrix	Matrix containing ages and calibrated ages for each shell increment

Note

Please cite Geoscientific Model Development paper dealing with the ShellTrace model

Author(s)

Niels J. de Winter

Source

GitHub
Manuscript
Supplementary data
Author website

References

de Winter, N. J.: ShellTrace v1.0 - A new approach for modelling growth and trace element uptake in marine bivalve shells: Model verification on pacific oyster shells (Crassostrea gigas), Geosci. Model Dev. Discuss., https:\doi.org\10.5194\gmd-2017-137, in review, 2017.

Examples

  Llist<-Oyster_Convert_cross_section(O1_input, image_length, Xstep=1)

nielsjdewinter/ShellTrace documentation built on May 7, 2019, 2:55 a.m.