Claddis (version 0.7.0)

align_matrix_block: Aligns a phylogenetic matrix block

Description

Given a block of taxa and characters aligns text so each character block begins at same point.

Usage

align_matrix_block(matrix_block)

Value

Nothing is returned, instead the aligned block is sent to the clipboard ready for pasting into a text editor.

Arguments

matrix_block

The matrix block as raw input text.

Author

Graeme T. Lloyd [email protected]

Details

The function serves to help build NEXUS files by neatly aligning raw text blocks of taxa and characters. Or in simple terms it takes input that looks like this:

Allosaurus  012100?1011
Abelisaurus  0100???0000
Tyrannosaurus  01012012010
Yi  10101?0????

And turns it into something that looks like this:

Allosaurus     012100?1011
Abelisaurus    0100???0000
Tyrannosaurus  01012012010
Yi             10101?0????

I use this in building the NEXUS files on my site, graemetlloyd.com.

Examples

# Build example block from above:
x <- paste(c(
  "Allosaurus  012100?1011",
  "Abelisaurus  0100???0000",
  "Tyrannosaurus  01012012010",
  "Yi  10101?0????"
), collapse = "\n")

# Look at block pre-alignment:
x

# Align block and place on clipboard:
if (FALSE) {
align_matrix_block(x)
}

# To test the response open a text editor and paste the
# contents of the clipboard.