What is the purpose of BARCOD ?

BARCOD encodes a multiple alignment according to the method developed by Véronique Barriel (C.R.Acad.Sci.III 317(7):693-701).

From a an existing alignment (which will not be changed) BARCOD builds a character matrix suitable for use in phylogeny recontstruction programs. The method allows to encode each insertion/deletion event as one single event (whatever the number of nucleotides involved), while retaining any indel common to two or more taxa as a possibly shared character.

Usage

The input file is a multiple alignment in Phylip, MASE or FASTA format. The output file is a character matrix in NEXUS format (Maddison et al., 1997).

BARCOD can work in two modes :

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