bp_tree2pag - convert Bio::TreeIO parseable format trees to pagel format
bp_tree2pag -if nexus -i file.nexus > file.pag # OR pipe in through STDIN, and use newick format instead cat file.newick | bp_tree2pag -if newick > file.nh # OR specify an output and input bp_tree2pag -o file.pag -i file.newick
Convert TreeIO parseable files into Pagel format tree files. Be warned that pagel format only really supports a single tree per file so. Also Pagel parsing is not yet available in bioperl.
To install Bio::Seq, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Seq
CPAN shell
perl -MCPAN -e shell install Bio::Seq
For more information on module installation, please visit the detailed CPAN module installation guide.