table of contents
other versions
- bookworm 3.6.1+dfsg-1
- testing 3.6.1+dfsg-2
- unstable 3.6.1+dfsg-2+b1
- experimental 4.0~beta2+dfsg-1
alignments-diff(1) | alignments-diff(1) |
NAME¶
alignments-diff - Align two alignments for comparison.
SYNOPSIS¶
alignments-diff alignment-file1 alignment-file2 [OPTIONS]
DESCRIPTION¶
Align two alignments for comparison.
GENERAL OPTIONS:¶
- -h, --help
- produce help message
INPUT OPTIONS:¶
- --alphabet arg
- set to 'Codons' to prefer codon alphabets
OUTPUT OPTIONS:¶
- --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
REPORTING BUGS:¶
BAli-Phy online help: <http://www.bali-phy.org/docs.php>.
Please send bug reports to <bali-phy-users@googlegroups.com>.
AUTHORS¶
Benjamin Redelings.
Feb 2018 |