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From the Bottom of the Heap by Gavin L. Simpson is, unless otherwise expressly stated, licensed under a Creative Commons Attribution 3.0 Unported License.
Permissions beyond the scope of this license may be available at ucfagls.wordpress.com.Gavin Simpson on Twitter
- @rOpenSci Indeed! (must book flight...) 1 hour ago
- .@rOpenSci count me in & @sjGoring also already singing from this hymn sheet \cc @rmounce @dwbapst @cboettig 1 hour ago
- @JacquelynGill in other words: "is good enough to publish, just not in these hallowed pages". \cc @lucaborger @SHOALgroup 1 hour ago
- @StatelyTrees @GraemeSwindles used example of diff calib sets giving similar recons on same core as a test @Palaeolimnology @StephenJuggins 1 hour ago
- .@StatelyTrees identifying those extreme periods an interesting challenge for palaeo data @Palaeolimnology @GraemeSwindles @StephenJuggins 1 hour ago
- .@StatelyTrees this is an interesting issue; one man's extreme event is another's outlier @Palaeolimnology @GraemeSwindles @StephenJuggins 1 hour ago
- @StatelyTrees hardly surprising when using the *same* core data - that is *not* a test @Palaeolimnology @GraemeSwindles @StephenJuggins 1 hour ago
- .@JacquelynGill Is that an option where they send paper on to their paid-OA cousin? Like ESA with Ecology? @lucaborger @SHOALgroup 1 hour ago
- .@lucaborger you've obviously not done the format - submit - reject - reformat - resubmit merry-go-round too many time then? @JacquelynGill 1 hour ago
- @recology_ timely reminder for me to put up some more of my #rstats funs into github instead of locked away on my HDD @noamross 4 hours ago
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Tag Archives: ordination
Decluttering ordination plots in vegan part 2: orditorp()
In the earlier post in this series I looked at the ordilabel() function to help tidy up ordination biplots in vegan. An alternative function vegan provides is orditorp(), the last four letters abbreviating the words text or points. That is … Continue reading
Decluttering ordination plots in vegan part 1: ordilabel()
In an earlier post I showed how to customise ordination diagrams produced by our vegan package for R through use of colours and plotting symbols. In a series of short posts I want to cover some of the options available … Continue reading
Posted in Plotting, R, vegan
Tagged Biplot, graphics, ordination, PCA, principal components
1 Comment
Customising vegan’s ordination plots
As a developer on the vegan package for R, one of the most FAQs is how to customise ordination diagrams, usually to colour the sample points according to an external grouping variable. Now, just because we get asked how to … Continue reading
Generating sets of permutations
In previous posts I discussed how to generate a single permutation from a fully-randomised or restricted permutation design using shuffle(). Here I want to briefly mention the shuffleSet() function and illustrate it’s usage.
Posted in permute, R
Tagged ecology, environmetrics, Golden Jackal, ordination, Permutation, permutation tests, restricted permutations, time series
2 Comments
permute: a package for generating restricted permutations
Multivariate ordination methods are commonly used in ecology to investigate patterns in species composition in space or time. Constrained ordination methods such as redundancy analysis (RDA) and canonical correspondence analysis (CCA) are effectively just multiple regressions, but we lack the … Continue reading
Posted in permute, R, vegan
Tagged ecology, environmetrics, ordination, permutation tests
4 Comments
