deepblue_extend: extend

In MPIIComputationalEpigenetics/DeepBlueR: DeepBlueR

Description

Extend the genomic regions included in the query. It is possible to extend downstream, upstream or in both directions.

Usage

deepblue_extend(query_id = NULL, length = NULL, direction = NULL,
  use_strand = NULL, user_key = deepblue_options("user_key"))

Arguments

query_id	- A string (Query ID)
length	- A int (The new region length)
direction	- A string (The direction that the region will be extended: 'BACKWARD', 'FORWARD', 'BOTH'. (Empty value will be used for both direction.)
use_strand	- A boolean (Use the region column STRAND to define the region direction)
user_key	- A string (users token key)

Value

id - A string (id of the new query)

See Also

Other Operating on the data regions: deepblue_aggregate, deepblue_binning, deepblue_count_regions, deepblue_coverage, deepblue_distinct_column_values, 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, deepblue_tiling_regions

Examples

annotation_id = deepblue_select_annotations(
    annotation_name="CpG Islands",
    genome="hg19", chromosome="chr1")
deepblue_extend(query_id = annotation_id,
    length = 2000, direction = "BOTH",
    use_strand = TRUE)

MPIIComputationalEpigenetics/DeepBlueR documentation built on Aug. 11, 2021, 4:12 p.m.