deepblue_tiling_regions: tiling_regions

In MPIIComputationalEpigenetics/DeepBlue-R: DeepBlueR

Description

Generate tiling regions across the genome chromosomes. The idea is to "bin" genomic regions systematically in order to obtain discrete regions over which one can aggregate. Using the 'score_matrix' command, these bins (tiles) can be compared directly across experiments.

Usage

deepblue_tiling_regions(size = NULL, genome = NULL, chromosome = NULL,
  user_key = deepblue_options("user_key"))

Arguments

size	- A int (tiling size)
genome	- A string (the target genome)
chromosome	- A string or a vector of string (chromosome name(s))
user_key	- A string (users token key)

Value

id - A string (query id)

See Also

Other Operating on the data regions: deepblue_aggregate, deepblue_binning, deepblue_count_regions, deepblue_coverage, deepblue_distinct_column_values, deepblue_extend, deepblue_filter_regions, deepblue_flank, deepblue_get_experiments_by_query, deepblue_get_regions, deepblue_input_regions, deepblue_intersection, deepblue_merge_queries, deepblue_overlap, deepblue_query_cache, deepblue_query_experiment_type, deepblue_score_matrix, deepblue_select_annotations, deepblue_select_experiments, deepblue_select_regions

Examples

deepblue_tiling_regions(
    size = 10000,
    genome = "hg19",
    chromosome = "chr1")

MPIIComputationalEpigenetics/DeepBlue-R documentation built on Aug. 11, 2021, 3:18 p.m.