alignment-consensus - Construct a consensus alignment to summarize an
alignment sample.
alignment-consensus [OPTIONS] < alignments-file
Construct a consensus alignment to summarize an alignment sample.
-
-h, --help
- produce help message
-
--alphabet arg
- Specify the alphabet: DNA, RNA, Amino-Acids,
Amino-Acids+stop, Triplets, Codons, or Codons+stop.
-
--skip arg (=0)
- number of tree samples to skip
-
--max-alignments arg (=1000)
- maximum number of alignments to analyze
-
--strict arg
- ignore events below this probability
-
--cutoff arg
- ignore events below this probability
-
--uncertainty arg
- file-name for AU uncertainty vs level
- --verbose
- Output more log messages on stderr.
BAli-Phy online help: <
http://www.bali-phy.org/docs.php>.
Please send bug reports to <
[email protected]>.
Benjamin Redelings.