Man page - alignment-translate(1)
Packages contas this manual
- alignment-distances(1)
- alignment-max(1)
- bali-phy(1)
- tree-mean-lengths(1)
- mcon-tool(1)
- extract-ancestors(1)
- cut-range(1)
- alignment-indices(1)
- alignment-thin(1)
- stats-select(1)
- pickout(1)
- trees-consensus(1)
- alignment-gild(1)
- alignment-chop-internal(1)
- summarize-ancestors(1)
- draw-tree(1)
- bali-phy-pkg(1)
- mctree-mean-lengths(1)
- tree-tool(1)
- alignment-find(1)
- trees-bootstrap(1)
- alignment-translate(1)
- trees-distances(1)
- alignment-cat(1)
- statreport(1)
- bp-analyze(1)
- alignment-info(1)
- alignment-draw(1)
- alignments-diff(1)
- alignment-consensus(1)
- bali-subsample(1)
Package: bali-phy
apt-get install bali-phy
apt-get install bali-phy
Manuals in package:
Documentations in package:
Manual
| alignment-translate(1) | alignment-translate(1) |
NAME
alignment-translate - Translate a DNA/RNA alignment into amino acids.
SYNOPSIS
alignment-translate [OPTIONS] < sequence-file [OPTIONS]
DESCRIPTION
Translate a DNA/RNA alignment into amino acids.
ALLOWED OPTIONS:
- -h, –help
- Produce help message
- -g arg (=standard), –genetic-code arg (=standard)
- Specify alternate genetic code.
- -f arg (=1), –frame arg (=1)
- Frame 1, 2, 3, -1, -2, or -3
- -r, –reverse
- Just return the reverse
- -c, –complement
- Just return the complement
- -t arg (=yes), –translate arg (=yes)
- Translate the sequences
EXAMPLES:
Translate DNA or RNA to amino acids in reading frame 1:
-
% alignment-translate < dna.fasta > aa.fasta
Give the reverse complement without translation:
-
% alignment-translate -rc --translate=no < dna.fasta > dna2.fasta
The following commands are identical:
-
% alignment-translate --frame=-2 < dna.fasta > aa2.fasta % alignment-translate -rc --frame=2 < dna.fasta > aa2.fasta
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 |