maxi.qtl

A data frame with 3 basic columns; "chr", "pos", "lod". Make sure your data frame has this 3 column names. Even though not all the times the scale is measure as LOD this will not affect the peak search, is just to help the program recognize which column has the signal intensity measurement.

A numeric value indicating how far in distance (e.g. cM) we will consider a close QTL a different QTL since several points can form a QTL peak. The column "pos" is used to find such distances.

distan

A numeric value indicating the threshold where we want to declare a peak significant in your scale (e.g. LOD, -log10(p.val), etc.).


This function find maximum peaks in a data frame from QTL mapping.


Mixed model equation solver allowing the specification of variance covariance structures for random effects. ML/REML estimates are obtained using the Average Information, Expectation-Maximization, Newton-Raphson, or Efficient Mixed Model Association algorithms. Designed for genomic prediction and genome wide association studies (GWAS) to include additive, dominance and epistatic relationship structures or other covariance structures in R, but also functional as a regular mixed model program. Multivariate models can be fitted for mixed models with a single random effect.

maxi.qtl: Peak search by first derivatives

Description

Usage

Arguments

Value

Details

References

See Also