Releases · AtlasOfLivingAustralia/phylolink

Main enhancements include:

users can upload own occurrence data on Occurrences tab, and can switch between a custom dataset and ALA data there. The choice of occurrence dataset selected then applies across all tabs until/unless the user changes the selection.
users can upload a tree with tips that do not match to ALA taxonomy (e.g. OTU, infraspecies, lineage). Users are given an opportunity to match tips to ALA taxonomy or leave unmatched and/or resolve mismatches. The tree can then be visualised with a custom occurrence set and characters, provided the names of the tips of the trees match the names used in the occurrence or character custom datasets.
users can upload custom character data on the Character tab, and can select this or other relevant character matrices (comes from the ALA list tool).
users can trim an uploaded tree to include/exclude taxa from a choice of Australia, ALA, or a custom species list.
raw data used to create Analysis and Map tab visualisations can be exported
sample size and other statistical information are shown on the Analysis tab
a tree admin page has been added to promote and withdraw expert trees (we have sourced more expert trees which will be loaded progressively)
an info box top right of visualisation landing page displays selected data source and number of taxa in the selected clade
users can delete their visualisation and trees
PD can be calculated for multiple polygons in a layer (e.g. for all IBRA regions)

Usability improvements include:

improved user interface layout and explanations for menu and wizard options
improved labelling for charts on Analysis and Character tabs
link to the spatial portal is available from the Map tab
‘colour by’ dropdown on the Map tab now has human readable text
only character lists relevant to the selected tree are shown in the dropdown on Character tab
remarkable improvement in time taken to load species characters on the Character tab
on the Analysis tab environmental layers are now grouped into categories for easier selection, and metadata for selected environmental layers is available
users can now align tree leaves in a vertical line
layout, content and readability of PD results table in the spatial portal PD tool improved

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