LocalInt: Local Interval Mapping

In egking/DSPRqtl: Analysis of DSPR phenotypes in R

Description

LocalInt performs standard interval mapping around a given peak for a range of positions specified by the user.

Usage

LocalInt(peakChr, peakPos, range = 100, phenotype.dat, pheno.name, design)

Arguments

peakChr	character vector of length one. Must be one of the major chromosome arms in the Drosophila genome ('X','2L','2R','3L',or '3R').
peakPos	numeric vector of length one. A position in base pairs in the DSPR position list (every 10kb).
range	numeric vector of length one specifying the number of positions to test on either side of the peak (positions are every 10kb). Default is 100.
phenotype.dat	data.frame containing a column of ril ids (must be named patRIL) and phenotypes.
pheno.name	a character string specifying the column name of the phenotype data
design	a character string. One of either 'inbredA' or 'inbredB' corresponding to the pA and pB set of inbred RILs. Other crossing designs may be supported in the future.

Value

A data.frame consisting of the chromosome, physical position (bp), genetic position (cM) and LOD score for each position.

Author(s)

Elizabeth King ([e-mail])

egking/DSPRqtl documentation built on May 16, 2019, 12:14 a.m.