incr_matrix1

A dataset containing specific parameters calculated for all digitized growth
increments from the Crassostre gigas #1 oyster used as an example in de Winter
(2017) sorted per increment.

datasets

Contains all the formulae of the growth and trace element uptake model described in the equally-named
Geoscientific Model Development paper (de Winter, 2017, <doi:10.5194/gmd-2017-137>). The model takes as input a file with X- and Y-coordinates of digitized
growth increments recognized on a longitudinal cross section through the bivalve shell, as well as a BMP file of an elemental map of the
cross section surface with chemically distinct phases separated by phase analysis. It proceeds by a step-by-step process described in
the paper, by which digitized growth increments are used to calculate changes in shell height, shell thickness, shell volume, shell mass
and shell growth rate through the bivalve's life time. Then, results of this growth modelling are combined with the trace element mapping
results to trace the incorporation of trace elements into the bivalve shell. Results of various modelling parameters can be exported in
the form of XLSX files.

Niels de Winter

shelltrace

Bivalve Growth and Trace Element Accumulation Model

incr_matrix1 function

A data frame with 8 rows and 5 variables:<dl class="dl-horizontal">
 <dt>growth band</dt><dd>name of the growth increment</dd>
 <dt>age (days)</dt><dd>Age associated with the deposition of the growth increment</dd>
 <dt>age_cal (days)</dt><dd>Age associated with the deposition of the growth increment, calibrated to the seasonal cycle</dd>
 <dt>incr_area</dt><dd>area between subsequent increments</dd>
 <dt>incr_cumarea</dt><dd>area between increment and the top of the shell</dd>
</dl>

Format

Matrix containing data calculated for each growth band. — incr_matrix1

A data frame with 8 rows and 5 variables:<dl class='dl-horizontal'>
 <dt>growth band</dt><dd>name of the growth increment</dd>
 <dt>age (days)</dt><dd>Age associated with the deposition of the growth increment</dd>
 <dt>age_cal (days)</dt><dd>Age associated with the deposition of the growth increment, calibrated to the seasonal cycle</dd>
 <dt>incr_area</dt><dd>area between subsequent increments</dd>
 <dt>incr_cumarea</dt><dd>area between increment and the top of the shell</dd>
</dl>

incr_matrix1: Matrix containing data calculated for each growth band.

Description

Usage

Arguments

Format