MAP {MinimumDistance} | R Documentation |
This functions is deprecated and will be defunct in a future release. The replacement function is MAP2.
MAP( object, ranges, id, TAUP = 1e+10, tauMAX = 1 - 5e-08, cnStates = c(-2, -0.4, 0, 0, 0.4, 1), pr.nonmendelian = 1.5e-06, mdThr = 0.9, ... )
object |
see |
ranges |
A |
id |
character string for sample identifier |
TAUP |
scalar for transition probabilities |
tauMAX |
the maximum probability that the current state is the same as the previous state |
cnStates |
character vector for hidden Markov model state labels |
pr.nonmendelian |
numeric: the a priori probability of a non-Mendelian copy number alteration |
mdThr |
a length-one numeric vector. A minimum distance below this threshold in absolute value will not be evaluated for copy number alterations. |
... |
Ignored. |