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1-way ordered without replication
In the unordered 1-way design, replication is essential for any sort of test (otherwise how can y...
2-way crossed ANOSIM (Danish sediment data; Phuket coral reefs)
For an example of a 2-way crossed ANOSIM test in a very different context, save and close the abo...
2-way crossed ANOSIM (Tasmanian crabs study)
An example of a 2-way crossed layout was introduced in Section 1, for meiofaunal communities in s...
1-way ordered ANOSIM (Ekofisk oil-field study)
However, for the Ekofisk oil-field study of the last section there is a postulated cause for bent...
1-way layout (Biomarkers example)
ANOSIM applies equally well to data on environmental, biomarker or morphometric variables, which ...
1-way layout (WA fish diet example)
Return to the W Australian fish diet data, introduced at the start of Section 4 and last seen und...
ANOSIM introduction
The series of ANOSIM (analysis of similarity) tests, accessed through Analyse>ANOSIM, operate on ...
Combined nMDS; (Messolongi diatoms & abiotic data)
A variation of the above, and a final new PRIMER 7 feature to discuss in this section, is the opt...
‘Fix collapse’ in nMDS; (Ko Phuket transects of coral reefs)
The PRIMER 7 nMDS dialog box includes a new option to (✓Fix Collapse). This addresses the problem...
Metric MDS for ordinating few points
Though usually greatly inferior to nMDS for typical ordinations from community similarities (e.g....
Threshold metric MDS (tmMDS)
The mMDS Shepard diagram above strongly suggests a middle course between simple metric and non-me...
(Morlaix macrofauna, Amoco-Cadiz oil spill)
Close the World cities worksheet (it will not be needed again) and re-open workspace Morlaix ws, ...
Animating the mMDS/nMDS iterations
Another feature introduced in PRIMER 7 is more of a teaching tool than an analysis method per se,...
Identifying points on the Shepard plot
Show this by running the matching nMDS to the above mMDS, this time setting (Minimum stress: 0.00...
Metric MDS; (Great-circle distances for world cities)
A significant new feature in PRIMER 7 is the construction of metric MDS ordinations (mMDS), toget...
Bubble data selection error & Refresh
It is worth repeating the point made at the start of these examples on bubble plots: if the routi...
Bubble plots on averages
For these data, a segmented bubble plot on a 2-d ordination provides a succinct summary of the re...
(Bristol Channel zooplankton)
The BC zooplankton density data sheet in C:\Examples v7\BC zooplankton was used in the last half ...
Environment bubble & vector plots
An important use for a bubble plot is in displaying the behaviour of a further measured variable,...
Duplicate graphs
Abra prismatica appears to be a species which can tolerate the contaminant or disturbance effects...