cosmo-class {cosmo} | R Documentation |
An object of class "cosmo"
is automatically created after calling the 'cosmo' function and summarizes the results.
Objects can be created by calls of the form new("cosmo", ...)
.
seqs
:pwm
:pwm
representing the
estimated position weight matrix.back
:tmat
:cand
:cons
:sel
:motifs
:"align"
representing
the predicted motif occurrences.probs
:objectCall
:
signature(object = "cosmo",...)
Summarizes the
cosmo object.signature(x = "cosmo",type="PWM", ...)
If type == "PWM"
, plots the sequence logo of the discovered
motif. If type == "prob"
, plots the posterior probabilities
of motif occurrences along all input sequences.
signature(x = "cosmo",...)
Prints the discovered motifs along with the
sequences they were discovered on, the starting positions, the
strand, and the posterior probability of a motif occurrence at this
site. Also prints the estimates position weight matrix.signature(object = "cosmo")
Prints the discovered motifs along with the
sequences they were discovered on, the starting positions, the
strand, and the posterior probability of a motif occurrence at this
site. Oliver Bembom, bembom@berkeley.edu