CreateConsensus: Consensus Sequence for a DNA motif
In MEET: MEET: Motif Elements Estimation Toolkit
Description
Usage
Arguments
Details
Value
Author(s)
References
See Also
Examples
Description
Using seqinr R package, constructs a consensus DNA sequences from a set of aligned Sequences
Usage
1
CreateConsensus(alignedSequences,iicc,filein)
Arguments
alignedSequences
Aligned DNA sequences
iicc
Initial options
filein
Fasta file with a set of aligned sequences with MEME
Details
package "seqinr" is required
Value
SeqCons: Consensus sequence (if gaps a "Na" is returned)
Author(s)
Erola Pairo <epeiroatibec.ub.pcb.es>
References
https://r-forge.r-project.org/projects/seqinr/
See Also
align.clustalw, align.MEME, read.aligned, align.muscle
Examples
1
2
3
4
5
require("MEET")
data(TranscriptionFactor)
data(iicc)
pathMEET <- system.file("sequences", package = "MEET")
SeqCons<-CreateConsensus(TranscriptionFactor,iicc,filein=NULL)
MEET documentation built on May 2, 2019, 1:45 p.m.
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Description Usage Arguments Details Value Author(s) References See Also Examples
Description
Using seqinr R package, constructs a consensus DNA sequences from a set of aligned Sequences
Usage
1 | CreateConsensus(alignedSequences,iicc,filein)
|
Arguments
alignedSequences |
Aligned DNA sequences |
iicc |
Initial options |
filein |
Fasta file with a set of aligned sequences with MEME |
Details
package "seqinr" is required
Value
SeqCons: Consensus sequence (if gaps a "Na" is returned)
Author(s)
Erola Pairo <epeiroatibec.ub.pcb.es>
References
https://r-forge.r-project.org/projects/seqinr/
See Also
align.clustalw, align.MEME, read.aligned, align.muscle
Examples
1 2 3 4 5 | require("MEET")
data(TranscriptionFactor)
data(iicc)
pathMEET <- system.file("sequences", package = "MEET")
SeqCons<-CreateConsensus(TranscriptionFactor,iicc,filein=NULL)
|
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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