Cut HiC map in chunks.

Cut a mega contactMatrix (joint from multiple chromosomic maps) into a list of contactMatrix.

Usage

CutHiC(megaHic, verbose = FALSE)

Arguments

megaHic

: The HiC megamap.

verbose

: If TRUE, show the progression in console. (Default FALSE)

Value

A matrices list.

Details

CutHiC

Examples

data(HiC_Ctrl.cmx_lst)
Mega_Ctrl.cmx <- JoinHiC(HiC_Ctrl.cmx_lst)
CutHiC(Mega_Ctrl.cmx)
#> $`2L_2L`
#> class: ContactMatrix 
#> dim: 236 236 
#> type: dgCMatrix 
#> rownames: NULL
#> colnames: NULL
#> metadata(5): name type kind symmetric resolution
#> regions: 236
#> 
#> $`2L_2R`
#> class: ContactMatrix 
#> dim: 236 253 
#> type: dgCMatrix 
#> rownames: NULL
#> colnames: NULL
#> metadata(5): name type kind symmetric resolution
#> regions: 489
#> 
#> $`2R_2R`
#> class: ContactMatrix 
#> dim: 253 253 
#> type: dgCMatrix 
#> rownames: NULL
#> colnames: NULL
#> metadata(5): name type kind symmetric resolution
#> regions: 253
#> 
#> attr(,"resolution")
#> [1] 1e+05
#> attr(,"mtx")
#> [1] "obs"
#> attr(,"chromSize")
#> # A tibble: 2 × 3
#>   name    length dimension
#>   <chr>    <dbl>     <dbl>
#> 1 2L    23513712       236
#> 2 2R    25286936       253
#> attr(,"matricesKind")
#> # A tibble: 3 × 4
#>   name  type  kind  symmetric
#>   <chr> <chr> <chr> <lgl>    
#> 1 2L_2L cis   U     TRUE     
#> 2 2L_2R trans NA    FALSE    
#> 3 2R_2R cis   U     TRUE