qb.genoprob {qtlbim} | R Documentation

## Grid point and genotype probability computation method

### Description

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.

### Usage

    qb.genoprob(cross, map.func = c("Haldane","Kosambi"), step = 2,
      tolerance = 1e-6, ...)

### Arguments

`cross` | An object of class `cross`. See `read.cross` for details.
`map.func` | Indicates whether to use the "Haldane" or "Kosambi" map function when converting genetic distances to recombination fractions.
`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`.
`...` | Extra arguments to pass to `calc.genoprob`.

### Value

`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.

### Author(s)

Dr. Nengjun Yi, et al., nyi@ms.ssg.uab.edu

### References

http://www.qtlbim.org

### See Also

`jittermap`, `calc.genoprob`.

### Examples

    ## calculate grids and genotypic probabilites
    cross <- qb.genoprob(cross,map.func="Haldane",step=2)

[Package qtlbim version 1.6.5 Index]