vegtable 0.1.8

Handling vegetation data sets.

Handling Vegetation Data Sets

v0.1.6

Merge remote-tracking branch 'origin/miguel'

Handling Vegetation Data Sets

A new interesting feature is the function count_taxa(), which is already defined in the last version of the package taxlist.
Thus for counting taxa in the taxonomic list included in an object of class vegtable, than try:

library(vegtable)

count_taxa(Kenya_veg@species)
count_taxa(Kenya_veg@species, level="species")

The same function applied to the whole object will only consider records of taxa in the plot observations:

count_taxa(Kenya_veg)
count_taxa(Kenya_veg, level="species")
count_taxa(Kenya_veg, level="species", include_lower=TRUE)

And last but not least, statistics per plot can be calculated by using the formula method:

count_taxa(species ~ ReleveID, data=Kenya_veg[1:5,], include_lower=TRUE)
count_taxa(genus ~ ReleveID, data=Kenya_veg[1:5,], include_lower=TRUE)
count_taxa(family ~ ReleveID, data=Kenya_veg[1:5,], include_lower=TRUE)

Handling Vegetation Data Sets

v0.1.3

Adaptations to missing method fro 'levels'

Adapted to new 'taxlist' version

This version is adapted to current version of package taxlist v0.1.4.

Newest CRAN version

New features in vegtable:

• function subset also working in slots of included taxlist object

data(Kenya_veg)
Ochna <- subset(Kenya_veg, grepl("Ochna insculpta", TaxonName), slot="taxonNames")
summary(Ochna)

• function clean does not touch slot species
• function crosstable access also to taxon traits

Cross <- transform(Kenya_veg, to="percentage")
Cross <- crosstable(percentage ~ ReleveID + GENUS, Cross, sum, na_to_zero=TRUE)

• a method for function aggregate

Table <- aggregate(ReleveID ~ AcceptedName, Kenya_veg, length)
head(Table[order(Table$ReleveID, decreasing=TRUE),])

• new argument use_nas for function crosstable

• slot layers added to vegtable objects

slotNames(Kenya_veg)

First version on CRAN

For more details, visit https://github.com/kamapu/vegtable/.

Some applications are also available at https://kamapu.github.io/workshops_freiburg_2017.html.

For the installation of last CRAN version:

install.packages("vegtable", dependencies=TRUE)

vegtables: preliminary release

vegtables is an R-package to load and handle data from Turboveg databases.