BCRANKsearch-class {BCRANK} | R Documentation |
Holds the whole search path from a single
bcrank
run. Each individual search step
is stored in a
BCRANKmatch-class
object. Several objects of this class are collected in a
BCRANKresult-class
object
Objects are not intended to be created directly but as a result from
running bcrank
.
searchPath
:BCRANKmatch-class
objects, ontaining all bcrank search steps from a start guess to a
locally optimal solution.finalPWM
:signature(object = "BCRANKsearch", i=NULL)
:
If i
is NULL, returns a data frame containing consensus and score
for the whole search path. Otherwise, the i'th
BCRANKmatch-class
object in the search path is returned.signature(object = "BCRANKsearch", normalize=TRUE)
: Returns
the position weight matrix (pwm) for the highest scoring consensus in
this bcrank run. Matrix positions are between between 0 and 1 when normalize
is TRUE. When FALSE, the number of matching sequences is reported.signature(x = "BCRANKsearch", y = "missing")
:
A plot method for the searchPath.Adam Ameur, adam.ameur@lcb.uu.se
bcrank
,
BCRANKmatch-class
,
BCRANKresult-class