How to subset the COMPADRE/COMADRE matrix database based on the matrices themselves. This example counts NA values in the F matrix and uses that to subset.

subset_compadre_based_on_matrices.R

# How to subset the matrix database based on the matrices themselves.
# This example counts NA values in the F (fecundity) matrix of each population
# and uses that to subset. Uses the modern Rcompadre CompadreDB API.
library(Rcompadre)

compadre <- cdb_fetch("compadre")

# matF() returns a list of the F matrices, one per row of the database.
# Count the NA values in each, and store as a new metadata column.
compadre$NAinFmat <- sapply(matF(compadre), function(m) sum(is.na(m)))

table(compadre$NAinFmat)

# Keep only populations whose F matrix has no NA values.
x <- subset(compadre, NAinFmat == 0)

table(x$NAinFmat)