pwmToSeq: Calculate sequence for PWM
In sherrillmix/dnar: Miscellaneous functions to deal with bioinformatic analyses
pwmToSeq R Documentation
Calculate sequence for PWM
Description
Calculate sequence for PWM
Usage
pwmToSeq(pwm, cutoff = 0.2, singleCutoff = cutoff)
Arguments
pwm
a matrix with rows unique bases and columns positions
cutoff
consider any base with proportion greater than this cutoff present
singleCutoff
only label base with a single bases if the proportion is greater than this cutoff
Value
a single character string containing the consensus sequence using ambiguous base codes
See Also
pwm, ambiguous2regex
Examples
seqs<-c('ACA','ACA','ACA','ACT','ACT','ACC')
seqPwm<-pwm(seqs)
pwmToSeq(seqPwm)
sherrillmix/dnar documentation built on July 18, 2022, 10:07 p.m.
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.
| pwmToSeq | R Documentation |
Calculate sequence for PWM
Description
Calculate sequence for PWM
Usage
pwmToSeq(pwm, cutoff = 0.2, singleCutoff = cutoff)
Arguments
pwm |
a matrix with rows unique bases and columns positions |
cutoff |
consider any base with proportion greater than this cutoff present |
singleCutoff |
only label base with a single bases if the proportion is greater than this cutoff |
Value
a single character string containing the consensus sequence using ambiguous base codes
See Also
pwm, ambiguous2regex
Examples
seqs<-c('ACA','ACA','ACA','ACT','ACT','ACC')
seqPwm<-pwm(seqs)
pwmToSeq(seqPwm)
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.