blockAlignment: Make all sequences the same length
In spider: Species Identity and Evolution in R

Description Usage Arguments Details Value Author(s) Examples

Coerces all sequences in a DNAbin object to the same length.

1	blockAlignment(DNAbin, mode = "shortest", range = NULL, fill = "")

`DNAbin`	An object of class `DNAbin`
`mode`	Character vector. Options of "shortest" or "longest"
`range`	Numeric vector of length 2. Index of the bases where the new alignment should begin and end
`fill`	Character to fill the extra bases in short sequences. Default of "" (blank). Recommend that only "-" (gap) or "?" be used

When mode = "shortest", the alignment is truncated at the length of the shortest sequence. When mode = "longest", the alignment is extended to the end of the longest sequence, with shorter sequences filled in with "fill"s.

A DNAbin object in matrix format.

Samuel Brown <s_d_j_brown@hotmail.com>

data(salticidae)
salticidae
blockAlignment(salticidae)
blockAlignment(salticidae, mode = "longest")
blockAlignment(salticidae, mode = NULL, range = c(200, 600))

image(blockAlignment(salticidae))
image(blockAlignment(salticidae, mode = "longest"))
image(blockAlignment(salticidae, mode = NULL, range = c(200, 600)))