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other versions
- bookworm 3.6.1+dfsg-1
- testing 3.6.1+dfsg-3
- unstable 3.6.1+dfsg-3
- experimental 4.0~beta16+dfsg-1
alignment-gild(1) | alignment-gild(1) |
NAME¶
alignment-gild - Annotate each residue in the alignment according to the probability that it should align to the hypothetical root character in its column.
SYNOPSIS¶
alignment-gild alignment-file tree-file ... [OPTIONS] < alignments-file
DESCRIPTION¶
Annotate each residue in the alignment according to the probability that it should align to the hypothetical root character in its column.
ALLOWED OPTIONS:¶
- -h, –help
- produce help message
- –align arg
- file with sequences and initial alignment
- –tree arg
- file with initial tree
- –find-root
- estimate the root position from branch lengths
- –alphabet arg
- set to `Codons' to prefer codon alphabets
- –skip arg (=0)
- number of alignment samples to skip
- –max-alignments arg (=1000)
- maximum number of alignments to analyze
- -V, –verbose
- Output more log messages on stderr.
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 |