qtl: reorderqtl – R documentation

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qtl

reorderqtl

Reorder the QTL in a qtl object

Description

This function changes the order of the QTL in a QTL object.

Usage

reorderqtl(qtl, neworder)

Arguments

`qtl`	A qtl object, as created by `makeqtl`.
`neworder`	A vector containing the positive integers up to the number of QTL in `qtl`, indicating the new order for the QTL. If missing, the QTL are ordered by chromosome and then by their position within a chromosome.

Details

Everything in the input qtl is reordered except the altname component, which contains names of the form Q1, Q2, etc.

Value

The input qtl object, with the loci reordered.

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 <- subset(fake.f2, chr=qc)

fake.f2 <- calc.genoprob(fake.f2)
qtl <- makeqtl(fake.f2, qc, qp, what="prob")

qtl <- reorderqtl(qtl, c(2,3,1))
qtl

qtl <- reorderqtl(qtl)
qtl

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