View source: R/MatchHierPageToEOLdata.R
MatchHierPageToEOLdata | R Documentation |
These functions match hierarchy concept IDs with EOL page data and/or taxonomic tree tips.
MatchHierPageToEOLdata(MyHiers, EOLdata) MatchDataToTreeTips(Tree, Data)
MyHiers |
A vector of filenames for downloaded hierarchy pages or a list of XML data stored as an R object |
EOLdata |
Any output dataframe from Reol functions |
Tree |
Taxonomic tree in the class phylo |
Data |
Data output from one of the EOL or Hierarchy gathering functions' |
MatchHierPageToEOLdata
returns a data frame where each row is a taxonomic unit.
This is especially helpful if you wish to plot EOL data on a taxonomic tree (see example),
because it matches the hierarchy taxon names with the EOL data (since taxon names will not
always match). MatchDataToTreeTips
will match the tip labels on a tree with those from
a data frame. It orders the data in the same way as is in the trees, so that you can plot data
on a tree without distortion (either in number of data points, or in taxonomic name).
## Not run: # plotting richness scores data(MyEOLs) data(MyHiers) Tree <- MakeHierarchyTree(MyHiers, includeNodeLabels=FALSE) MyData <- MatchHierPageToEOLdata(MyHiers, GetRichnessScores(MyEOLs)) plot(Tree, label.offset=1, x.lim=10) tiplabels(round(as.numeric(MyData[,3])), 1:6, col="Blue", frame="none", bg="clear",adj = -0.5) title(main="Richness scores") ## End(Not run)
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