extractRegion: Extract a subset of the HTCexp object
In HiTC: High Throughput Chromosome Conformation Capture analysis

Description Usage Arguments Details Value Author(s) See Also Examples

Extract a subset of the HTCexp object based on genomic ranges

1	extractRegion(x, MARGIN, chr, from, to, exact=FALSE)

`x`	object that inherits from class `HTCexp`
`MARGIN`	a vector giving the subscripts which the function will be applied over as in 'apply' function. E.g., '1' for the 'x' intervals, and '2' for the 'y' intervals, 'c(1, 2)' indicates 'x' and 'y' intervals.
`chr`	character; the chromosome of the genomic region
`from`	numeric; start of the genomic region
`to`	numeric; end of the genomic region
`exact`	logical; exact genomic region

By default, only the intervals fully included in the genomic ranges are returned. If exact is true, the overlapping intervals are also used, and forced to start/end at the specified position. If no intervals are overlapping, an interval with NA values is added.

A HTCexp object

N. Servant

GRanges-class

data(Nora_5C)

## Focus on the genomic region chrX:98000000-100000000
E14sub<-extractRegion(E14$chrXchrX, c(1,2), chr="chrX", from=98000000, to=100000000)
show(E14sub)