exportC {HiTC} | R Documentation

## Export `HTCexp` object

### Description

Export `HTCexp` object to tab format

### Usage

    exportC(x, file, per.chromosome=FALSE, use.names=FALSE, header=FALSE)

### Arguments

`x` | object that inherits from class `HTCexp`
`file` | character; the basename of the output file
`per.chromosome` | logical; export each contact maps in a different files (i.e one per chromosome pair)
`use.names` | if TRUE, keep the original row/colnames of the contact matrix
`header` | if TRUE, add an header with the package version and the date

### Value

Three output files will be created ; 2 BED files for each genomic intervals, and one tab file. The standard format for 5C/Hi-C data is the following :
** One list file (tab delimited) bin1 bin2 x12 bin1 bin3 x13 ... ** The BED file(s) describing the intervals ('xgi.bed' and 'ygi.bed' are usually the same for Hi-C but can be different for 5C data) chr1 1 1000000 bin1 chr1 1000001 2000000 bin2 ... Note that this format is particularly interesting for sparse data as only non null values are stored. If per.chromosome=FALSE, the data will be exported in one genome scaled file.

### Author(s)

N. Servant

### See Also

`export.my5C`, `importC`

### Examples

    ## Not run:
    data(Nora_5C)

    ## Data binning
    E14.bin<-binningC(E14$chrXchrX)

    ## Export the new intervals definition
    exportC(E14.bin, file="E14")

    ## End(Not run)

[Package HiTC version 1.38.0 Index]