align.muscle: Multiple sequence alignment by means of Muscle (MUltiple...
In MEET: MEET: Motif Elements Estimation Toolkit
Description
Usage
Arguments
Details
Author(s)
See Also
Description
DNA sequences are aligned by means of Muscle Version 3.8. (Multiple Sequences Alignment)
Usage
1
align.muscle(filein , fileout = "Sq.fa", gapopen = gapopen, maxiters = maxiters, gapextend = gapextend, call)
Arguments
filein
A set of nucleotide sequences in FASTA format.
fileout
Output file in FASTA format.
gapopen
Gap open score.
maxiters
Maximum number of iterations.
gapextend
Gap extend score.
call
string of characters needed to call Muscle from the working directory
Details
Gapopen and gapextend must be negative. Output is a file in FASTA format with aligned nucleotide sequences. This function needs aaMI-package.
Author(s)
Erola Pairo <epeiroatibec.pcb.ub.es> and Joan Maynou <joan.maynouatupc.edu>
See Also
align.clustalw, align.MEME
MEET documentation built on May 2, 2019, 1:45 p.m.
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Description Usage Arguments Details Author(s) See Also
Description
DNA sequences are aligned by means of Muscle Version 3.8. (Multiple Sequences Alignment)
Usage
1 | align.muscle(filein , fileout = "Sq.fa", gapopen = gapopen, maxiters = maxiters, gapextend = gapextend, call)
|
Arguments
filein |
A set of nucleotide sequences in FASTA format. |
fileout |
Output file in FASTA format. |
gapopen |
Gap open score. |
maxiters |
Maximum number of iterations. |
gapextend |
Gap extend score. |
call |
string of characters needed to call Muscle from the working directory |
Details
Gapopen and gapextend must be negative. Output is a file in FASTA format with aligned nucleotide sequences. This function needs aaMI-package.
Author(s)
Erola Pairo <epeiroatibec.pcb.ub.es> and Joan Maynou <joan.maynouatupc.edu>
See Also
align.clustalw, align.MEME
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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