Can anybody make me clear how to use PHYLIP application's without using emboss tool as a wrapper class. I think it's possible just by commandine interface but doesn't seems to work for me.
Through command shell when i enter neighbor then its accessible but i can't do it through python. And what are the input file supported by the PHYLIP neighbor's application?
cline=neighborCommandline("neighbor", infile="save.aln", \ outfile="save.out", \ treefile="save.treefile") print cline
Thanks in advance