read.community reads in file containing occurrence data and returns a
sparse matrix.
read.community(file, grids = "grids", species = "species", ...)A file name.
Column name of the column containing grid cells.
Column name of the column containing the species / taxa names.
further arguments passed to or from other methods.
read.community returns a sparse matrix (an object of class
"dgCMatrix").
# \donttest{
df <- data.frame(grids=paste0("g", c(1,1,2,3,3)),
species = paste0("sp", c(1,3,2,1,4)))
df
#> grids species
#> 1 g1 sp1
#> 2 g1 sp3
#> 3 g2 sp2
#> 4 g3 sp1
#> 5 g3 sp4
tmp <- tempfile()
write.csv(df, tmp)
(M <- read.community(tmp) )
#> 3 x 4 sparse Matrix of class "dgCMatrix"
#> sp1 sp2 sp3 sp4
#> g1 1 . 1 .
#> g2 . 1 . .
#> g3 1 . . 1
sparse2long(M)
#> grids species
#> 1 g1 sp1
#> 2 g3 sp1
#> 3 g2 sp2
#> 4 g1 sp3
#> 5 g3 sp4
unlink(tmp)
# }