dropfromqtl {qtl}R Documentation

Drop a QTL from a qtl object

Description

Drop a QTL or multiple QTL from a QTL object

Usage

dropfromqtl(qtl, index, chr, pos, qtl.name, drop.lod.profile=TRUE)

Arguments

qtl A qtl object, as created by makeqtl.
index Vector specifying the numeric indices of the QTL to be dropped.
chr Vector indicating the chromosome for each QTL to drop.
pos Vector (of same length as chr) indicating the positions of the QTL to be dropped.
qtl.name Vector specifying the names of the QTL to be dropped.
drop.lod.profile If TRUE, remove any LOD profiles from the object.

Details

Provide either chr and pos, or one of qtl.name or number.

Value

The input qtl object with the specified QTL omitted. See makeqtl for details on the format.

Author(s)

Karl W Broman, kbroman@biostat.wisc.edu

See Also

makeqtl, fitqtl, addtoqtl, replaceqtl , reorderqtl

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

newqtl <- dropfromqtl(qtl, chr=1, pos=25.8)
altqtl <- dropfromqtl(qtl, index=1)
[Package qtl version 1.11-12 Index]