Geomorph tools

Spectral Decomposition. Seismic Geomorphology. Prospect Generation. VpVs from Simultaneous Inversion. Pre-stack Inversion. Well Correlation. Petrophysical Evaluation. Coloured Inversion. Fault Mapping.

Attribute Analysis. Seismic Interpretation Prospectivity Screening. Prospect Generation Asset Promotion. Regional Synthesis Opportunity Evaluation. First, the user may choose to manually produce deformation grids to compare the shapes corresponding to the extremes of a chosen PC axis using plotRefToTarget , i.

Of course here one can use all the plotting options available in plotRefToTarget. Please see the help file of that function for details. Alternatively, one may use the interactive function picknplot. This allows one to click on any point in the above scatterplot or any scatterplot produced by geomorph to obtain a deformation grid illustrating the shape that corresponds to the selected point, as compared to the global mean shape.

The function then interactively prompts the user to export the grid as an image file, if desired, and to continue by picking another point. To explore the function, run the code below and then click at any point inside the PCA scatterplot:. Again, options of the function plotRefToTarget are directly available and can be passed to picknplot. MacLeod, and P. Forey, eds. Morphology, shape and phylogeny. This can be easily done by providing a phylogenetic tree during the analysis which is however NOT used in the analytical step in this case, other than for estimating ancestral states , and then indicating that the phylogeny should also be plotted during the plotting step.

Again, all plotting arguments can be directly manipulated by the user. Please see the help file of plot. Here, the phylogeny IS considered during the analytical step of the ordination, as the principal components analysis is in this case calculated based on GLS-centering and projection of the data.

For the Plethodon example data, this analysis would be implemented and plotted as follows fir with untransformed residual projection and second with transformed residual projection :. Again, one can use the geomorph functions plotRefToTarget or picknplot. PaCA provides a projection that shows the most phylogenetic signal in the first few components, irrespective of other signals in the data.

For the Plethodon example data, this analysis would be implemented and plotted as follows:. Finally, substituting the corresponding option previously available through plotGMPhyloMorphoSpace , plot. Again, different plotting parameters can be controlled to manipulate plot aesthetics. Note, that in this case an rgl plotting device will open for the 3D plot, but the corresponding biplot with the phylogeny projected option 2, above will also be produced.

For more information on customizing the embed code, read Embedding Snippets. Functions Source code Man pages Phylo PCA without projecting untransformed residuals phylo. PCA plot phylo. Phylo PCA without projecting transformed residuals phylo. Any scripts or data that you put into this service are public.