qtl: addtoqtl – R documentation

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Documentation

qtl

addtoqtl

Add to a qtl object

Description

Add a QTL or multiple QTL to a qtl object.

Usage

addtoqtl(cross, qtl, chr, pos, qtl.name, drop.lod.profile=TRUE)

Arguments

`cross`	An object of class `cross`. See `read.cross` for details.
`qtl`	The qtl object to which additional QTL are to be added.
`chr`	Vector indicating the chromosome for each new QTL. (These should be character strings referring to the chromosomes by name.)
`pos`	Vector (of same length as `chr`) indicating the positions on the chromosome for each new QTL. If there is no marker or pseudomarker at a position, the nearest position is used.
`qtl.name`	Optional user-specified name for each new QTL, used in the drop-one-term ANOVA table in `fitqtl`. If unspecified, the names will be of the form `"Chr1@10"` for a QTL on Chromsome 1 at 10 cM.
`drop.lod.profile`	If TRUE, remove any LOD profiles from the object.

Value

An object of class qtl, just like the input qtl object, but with additional QTL added. See makeqtl for details.

Author(s)

Karl W Broman, broman@wisc.edu

Examples

data(fake.f2)

# take out several QTLs and make QTL object
qc <- c(1, 6, 13)
qp <- c(25.8, 33.6, 18.63)


fake.f2 <- calc.genoprob(fake.f2, step=2, err=0.001)
qtl <- makeqtl(fake.f2, qc, qp, what="prob")
qtl <- addtoqtl(fake.f2, qtl, 14, 35)

qtl

Tools for Analyzing QTL Experiments

v1.48-1

GPL-3

Authors

Karl W Broman <broman@wisc.edu> and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Robert Corty, Timothee Flutre, Ritsert Jansen, Pjotr Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron Wolen, Brian Yandell, and R Core Team

Initial release

2021-03-24