HiC_matrix.from_hic: Load a HiC_matrix from a .hic file.

In jrboyd/dthic: HiC analysis using data.table

Load a HiC_matrix from a .hic file.

Description

This HiC_matrix is only a small slice of complete matrix therefore stats like insulation are not valid.

Usage

HiC_matrix.from_hic(
  hic_f,
  query_gr,
  bin_size = NULL,
  matrix = c("observed", "oe", "expected")[2]
)

Arguments

hic_f	a .hic file
query_gr	a query GRanges
bin_size	the bin size to retrieve. Use strawr::readHicBpResolutions to find valid resoltions.
matrix	one of c("observed", "oe", "expected"). Default is "oe", observed/expected. See strawr::straw for details.

jrboyd/dthic documentation built on Oct. 4, 2022, 8:53 p.m.