This formal (S4) class is used to store multiple DNA alignments. Sequences are stored as a (possibly named) list, with each element of the list being a separate DNA alignment stored as a DNAbin matrix. The rows of the separate matrices all correspond to the same individuals, ordered identically.
class
Slots
dna: a list of DNAbin matrices; empty slot should be NULL
labels: a vector of labels of individuals
n.ind: the number of individuals
n.seq: the total number of sequences (pooling all genes), including gap sequences
n.seq.miss: the total number of gap-only sequences
ind.info: a data.frame containing information on the individuals, where individuals are in rows; empty slot should be NULL
gene.info: a data.frame containing information on the genes, where genes are in rows; empty slot should be NULL