Summarise GoShifter results — GOSHIFTER_summarise_results • echoannot

Filter GoShifter results to significant enrichments and report per-tissue counts.

GOSHIFTER_summarise_results(
  GS_results,
  roadmap_ref = NULL,
  chromatin_state = NULL,
  verbose = TRUE
)

Arguments

GS_results: A data.table of GoShifter results (as returned by GOSHIFTER or GOSHIFTER_run).
roadmap_ref: A ROADMAP reference data.table (from ROADMAP_construct_reference). If NULL, it is constructed automatically.
chromatin_state: Character vector of chromatin states tested.
verbose: Print messages (default TRUE).

Value

A data.table of significant results (enrichment p-value <= 0.05), arranged by enrichment.

See also

Other GOSHIFTER: GOSHIFTER(), GOSHIFTER_bed_names(), GOSHIFTER_check_overlap(), GOSHIFTER_create_LD(), GOSHIFTER_create_snpmap(), GOSHIFTER_find_folder(), GOSHIFTER_get_roadmap_annotations(), GOSHIFTER_heatmap(), GOSHIFTER_histograms_SNPgroups(), GOSHIFTER_histograms_pvals(), GOSHIFTER_list_chromatin_states(), GOSHIFTER_process_results(), GOSHIFTER_run(), GOSHIFTER_search_ROADMAP()