Bivalve Growth and Trace Element Accumulation Model
Calculate trace element accumulation rates
Runs the growth and trace element model
Function that converts XY-data of digitized cross section
Calculate concentrations of trace elements per sub-increment
Function that calculates the parameters of the base ellipse used for b...
Function that exports data of the growth model
Runs the entire growth model
Function that imports a BMP of an XRF map
Function that imports phase data
Function that imports a TIF file
Area between shell increments
Formula that interpolates shell increments
Formula that calculates mass increase of bivalve shell with time
Export results of trace element model
Function that calculates phase matrix
Function that calculates phase matrix
Runs the entire trace element model
Function that exports phase statistics
Plot the converted shell cross section
Plot the result of interpolation of sub-increments
Plot the result of interpolation of sub-increments with a coloured are...
Runs complete Step 2 of the growth model
Runs complete Step 3 of the growth model
Runs complete Step 4 of the growth model
Runs complete Step 5 of the trace element model
Runs complete Step 6 of the trace element model
Formula that calculates shell height through time
Formula that calculates average shell thickness through time
Formula that calculates area between sub-increments
Formula that calculates average shell thickness through time
Formula that calculates average shell thickness through time
Calculates proportion of phases in each sub-increment
A fomula to calculate shell height per sub-increment
Formula that calculates volume of the shell through time
Function that calculates matrices of Z-values for all sub-increments a...
Function to do an n-point moving average
ShellTrace: Growth and trace element uptake modelling in bivalve shell...
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.
Useful links