compareCoveragesReg: compareCoveragesReg - calculating given camel measures for a...
In ampliQueso: Analysis of amplicon enrichment panels

Calculating given camel measures for a list of regions specified by a BED file (sequential version)

1	compareCoveragesReg(iBedFile, iGroup, iT1, iT2, iMeasure = c("DA", "QQ", "PP", "HD1", "HD2"), iCovdesc = "covdesc",iParallel=TRUE)

`iBedFile`	BED file with same genomic coordinates as in BAMs (preferably standard hg19)
`iGroup`	Name of the attribute/group in the experimental description (i.e. covdesc)
`iT1`	name of the first group from the experiment (it should be consistent with the groupings specified in covdesc file)
`iT2`	name of the other group from the experiment (it should be consistent with the groupings specified in covdesc file)
`iMeasure`	vector specifing camel measures to be calculated
`iCovdesc`	Covdesc-like data frame - BAM files are read from row names. Similar to covdesc in simpleaffy and rnaSeqMap - tab delimited table of BAM files and groupings. This is the table of experimental design.
`iParallel`	boolean specifing whether calculations shoulb be run in parallel,true by default, The degree of parallelism is set up automagically and by default equals to the number of logical CPU cores.