genotypePlot: Expression Boxplots
In GeneticTools: Collection of Genetic Data Analysis Tools

Description Usage Arguments Details Value Author(s) Examples

Expression values are grouped according to genotype groups and then visualized with boxplots.

1	genotypePlot(snp,gene,eqtl,geneAnnot=NULL, ylab=NULL, xlab=NULL, mainlab=FALSE)

`snp`	`String`, specifies the genotype name.
`gene`	`String`, specifies the gene name.
`eqtl`	An `eqtl` object.
`geneAnnot`	`String`, specifies the gene name.
`ylab`	Optional x-axis label.
`xlab`	optional y-axis label
`mainlab`	`Logical`, shall main title be plotted

This function plots the expression values of the genotype groups of a certain SNP that can be given in the snp option. The expression values are specified in the gene option.

The eqtl object is the output of an eQTL run and carries the required genotype information.

A Figure.

Daniel Fischer

# Make the example data available
  data(Xgene) 
  data(genotData)
  data(annotTrack)

# We need to have the gene annotation in bed format (Please notice the change to the
# official convention, this is on high priority of the ToDo list of the package to change
# this.)
## Not run: 
  annotBed <- gtfToBed(annotTrack)
  
# Perform a basic cis-eQTL with the minimum required input linear model:
  lm.myEQTL <- eQTL(gex=Xgene,geno=genotData, xAnnot=annotBed,method="LM",windowSize=1)

# Plot the genotypes
  genotypePlot(snp="SNP377", gene="MYBPC1", eqtl=lm.myEQTL, ylab="Expression values", 
               xlab="Genotypes")

## End(Not run)