NAME

alignment-chop-internal - Remove ancestral sequences from an alignment.

SYNOPSIS

alignment-chop-internal [OPTIONS] < alignments-file

DESCRIPTION

Remove ancestral sequences from an alignment.

ALLOWED OPTIONS:

-h, --help

produce help message

--align arg

file with sequences and initial alignment

--alphabet arg

set to 'Codons' to prefer codon alphabets

--tree arg

file with tree that specifies leaves to keep

-N arg, --nleaves arg

number of sequences to keep

REPORTING BUGS:

BAli-Phy online help: http://www.bali-phy.org/docs.php.

Please send bug reports to bali-phy-users@googlegroups.com.