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Rolling up branches of the tree

PRIMER v7: User Manual / Tutorial 7. Managing the workspace and plotting ...

In the display of the Explorer tree at the beginning of this section, the SIMPROF1 window was...

Updated 2 months ago by Abby Miller

Understanding the Explorer tree

PRIMER v7: User Manual / Tutorial 7. Managing the workspace and plotting ...

Understanding the Explorer tree, however, is the key to managing your work pattern in PRIMER. In ...

Updated 2 months ago by Abby Miller

Closing, redisplaying & tiling windows; Minimising windows; View menu

PRIMER v7: User Manual / Tutorial 7. Managing the workspace and plotting ...

From the Explorer tree for the above illustration, you can see that workspace has been saved as B...

Updated 2 months ago by Abby Miller

Forward and backward propagation

PRIMER v7: User Manual / Tutorial 7. Managing the workspace and plotting ...

The Explorer tree not only makes it easy to navigate the sequence of steps taken in an analysis b...

Updated 2 months ago by Abby Miller

Flat-form clustering

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Another new introduction in PRIMER 7 is a form of non-hierarchical (flat) clustering, the analogu...

Updated 2 months ago by Abby Miller

Special menu for divisive trees

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

PRIMER 7 also provides a choice of representations of the tree structure, using either the A% or ...

Updated 2 months ago by Abby Miller

Text pane in tree plots; A% and B% y-axis scales

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Note how each node is now lettered so that information about the R value for that split can be di...

Updated 2 months ago by Abby Miller

Binary divisive clustering

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Two new clustering methods are introduced towards the end of Chapter 3 in CiMC, the first still a...

Updated 2 months ago by Abby Miller

Limiting font size

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Note that the plots above required a certain amount of juxtaposition of different font sizes for ...

Updated 2 months ago by Abby Miller

Single and complete linkage

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Now re-run Analyse>Cluster>CLUSTER>(Cluster mode•Single linkage), creating the SIMPROF factor Sin...

Updated 2 months ago by Abby Miller

Linkage by flexible beta method

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

There are four possible Cluster mode choices within the Analyse>Cluster>CLUSTER dialog box, disti...

Updated 2 months ago by Abby Miller

Histograms of null distributions

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

As in all permutation tests in PRIMER v7 (e.g. in ANOSIM, RELATE, BEST etc.), a further output fr...

Updated 2 months ago by Abby Miller

SIMPROF Types (1-4)

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

The first dialog box from running Analyse>SIMPROF, however, is of a new option to PRIMER 7, a cho...

Updated 2 months ago by Abby Miller

SIMPROF direct run

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

SIMPROF can be run directly using Analyse>SIMPROF, rather than as part of another analysis such a...

Updated 2 months ago by Abby Miller

CLUSTER results window

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

In addition to the dendrogram plot itself, Analyse>CLUSTER (like all analysis routines) produces ...

Updated 2 months ago by Abby Miller

(Bristol Channel zooplankton)

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Densities from 24 species of zooplankton at 57 sites in the Bristol Channel and Severn Estuary, c...

Updated 2 months ago by Abby Miller

SIMPROF method

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

The similarity profile test (SIMPROF), Clarke KR, Somerfield PJ, Gorley RN 2008, J Exp Mar Biol E...

Updated 2 months ago by Abby Miller

Zooming dendrograms

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Zooming is invoked by Graph>Zoom In or Zoom Out from the main menu, or by clicking on the Zoom in...

Updated 2 months ago by Abby Miller

Rotating & condensing dendrograms

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

The order of samples on the (by default) x axis of a dendrogram is to a large extent arbitrary, s...

Updated 2 months ago by Abby Miller

Special menu for slicing & orientation of dendrograms

PRIMER v7: User Manual / Tutorial 6. Clustering methods (CLUSTER, SIMPROF...

Unlike Graph>Samples Labels & Symbols or Graph>General, which take you to the Graph Options dialo...

Updated 2 months ago by Abby Miller