Get SNP bin idx

Usage

get_snp_bidx(
  snp,
  tilewidth = 1e+07,
  respect_chr_arms = FALSE,
  select_chrs = NULL,
  bs_genome = NULL,
  bins = get_tiled_bins(bs_genome = bs_genome, tilewidth = tilewidth, select_chrs =
    select_chrs, respect_chr_arms = respect_chr_arms),
  merge_cols = NULL
)

Arguments

snp: SingleCellExperiment SNP object generated by read_vartrix
tilewidth: Bin size
respect_chr_arms: logical If TRUE, bins will be created with respect to chromosome arms (ie. not crossing arm boundries)
select_chrs: Vector of chromosomes to include
bs_genome: A BSgenome object
bins: GRanges object with genome bins. Automatically generated by get_tiled_bins if not provided.
merge_cols: Vector of columns from bins to append to the snp ranges.

Value

SingleCellExperiment object with SNPs with bin idx for each snp