biodiverse
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shawnlaffan
A tool for the spatial analysis of diversity
``` The code repository has perl at the top level, with any other folder also existing at that level. Projects like Strawberry Perl have top level folders for perl, c,...
``` Label and group properties are currently attached to the basedata, meaning they cannot be changed once used in an analysis. It would be better to make them "first class"...
``` Changes under issue 82 supported the import of sparse matrices (tables where there is one value per row). These do no support cases where a GDM style format is...
``` Matrix building is currently a linear process on a single core. It should be possible to parallelise it using MCE, with prediction of existing elements done using binary searches...
``` Could you offer an option in view clusters, to colour the clusters in ordination space. This rendering is often used for GDM model results. So from a dissimilarity matrix...
``` The endemism calculations currently use the label range property if it is set. However, they should also use an area (or range) property if set for the groups. This...
``` The shadow matrix is used in clustering as a final combination of all members across all matrices used in clustering when more than one matrix is specified. This means...
Profiling indicates some of the bottlenecks are where a global precalc needs to be recalculated for each iteration of a randomisation. One example is the tree with equal length branches....
The spatial tab allows users to visualise results on the tree at the same time as they are viewing the map. This is even more useful now with the addition...
The example scripts need some attention so they can be used more easily. Tasks: - [ ] Use proper argument handling via a GetOpts module (some do, some don't) -...