alignments-diff - Align two alignments for comparison.
alignments-diff alignment-file1 alignment-file2
[OPTIONS]
Align two alignments for comparison.
- –alphabet arg
- set to `Codons' to prefer codon alphabets
- –merge
- Stack the two alignments into one alignment with duplicate names
- –dual
- Write out the two aligned alignments separately
- –fill arg (=gap)
- blank columns filled with: gap or unknown
- -d arg,
–differences-file arg
- Filename to store differences in AU format
- –blocksize arg (=20)
- Width of blocks of same color
- –classes arg (=1)
- Number of groups for non-matching characters
BAli-Phy online help:
<http://www.bali-phy.org/docs.php>.
Please send bug reports to
<bali-phy-users@googlegroups.com>.