| qb.genoprob {qtlbim} | R Documentation |
This function is used to compute putative QTL positions and genotypic probabilities at these positions. The genotypic probabilities for missing marker genotypes are also computed.
qb.genoprob(cross, map.function, step = 2, tolerance = 1e-6, stepwidth = "variable", ...)
cross |
An object of class cross. See read.cross for details. |
map.function |
Indicates what map function to use when converting
genetic distances to recombination fractions. See calc.genoprob. |
step |
Distance (in cM) between positions at which putative QTL
positions and their genotype probabilities are calculated. However,
specifying step = 0 would assume marker positions as putative
QTL locations and genotypic probabilities would be calculated only
for markers with missing genotype. |
tolerance |
Minimum separation of markers enforced by
jittermap. |
stepwidth |
Type of stepwidth for
calc.genoprob; "variable" works best with
MCMC sampling. |
... |
Extra arguments to pass to calc.genoprob. |
qb.genoprob first ensures marker separation is at least
tolerance, and then computes genotype probabilities at
pseudomarkers spaced approximately step units apart using
calc.genoprob. See calc.genoprob
for value.
Dr. Nengjun Yi, et al., nyi@ms.ssg.uab.edu
## calculate grids and genotypic probabilites cross <- qb.genoprob(cross,map.func="haldane",step=2)