deepblue_score_matrix: score_matrix
In MPIIComputationalEpigenetics/DeepBlueR: DeepBlueR

Description Usage Arguments Value See Also Examples

Build a matrix containing the aggregation result of the the experiments data by the aggregation boundaries.

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deepblue_score_matrix(experiments_columns = NULL,
  aggregation_function = NULL, aggregation_regions_id = NULL,
  user_key = deepblue_options("user_key"))

`experiments_columns`	- A struct (map with experiments names and columns to be processed. Example : 'wgEncodeBroadHistoneDnd41H3k27acSig.wig':'VALUE', 'wgEncodeBroadHistoneCd20ro01794H3k27acSig.wig':'VALUE')
`aggregation_function`	- A string (aggregation function name: min, max, sum, mean, var, sd, median, count, boolean)
`aggregation_regions_id`	- A string (query ID of the regions that will be used as the aggregation boundaries)
`user_key`	- A string (users token key)

score_matrix - A string (the score matrix containing the summarized data)

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_select_annotations, deepblue_select_experiments, deepblue_select_regions, deepblue_tiling_regions

tiling_regions = deepblue_tiling_regions(
    size=100000, genome="mm10", chromosome="chr1")
deepblue_score_matrix(
    experiments_columns =
        list(ENCFF721EKA="VALUE", ENCFF781VVH="VALUE"),
  aggregation_function = "mean",
  aggregation_regions_id = tiling_regions)