Get the example BED file or BEDset available through bedhost. Useful for an initial exploration of bedbaser with an example BED file and BEDset in BEDbase.
bb_example(bedbase, rec_type = c("bed", "bedset"))list() bed files or bedsets
bedbase <- BEDbase()
#> 663721 BED files available.
ex_bed <- bb_example(bedbase, "bed")
str(ex_bed)
#> List of 21
#> $ name : chr "ENCFF370XZK"
#> $ genome_alias : chr "hg38"
#> $ genome_digest : chr "Ba88PY52_qeifhJrgUXyin6UITdXNsg3"
#> $ bed_compliance : chr "bed5+1"
#> $ data_format : chr "bed_like_rs"
#> $ compliant_columns : int 5
#> $ non_compliant_columns: int 1
#> $ header : NULL
#> $ id : chr "0000143becc12fcd50c62f3d78fe7421"
#> $ description : chr "female adult (53 years)"
#> $ submission_date : chr "2026-04-09T19:40:03.413783Z"
#> $ last_update_date : chr "2026-04-14T18:46:25.972343Z"
#> $ is_universe : logi FALSE
#> $ license_id : chr "DUO:0000042"
#> $ annotation :List of 16
#> ..$ species_name : chr "Homo sapiens"
#> ..$ species_id : chr "9606"
#> ..$ genotype : chr ""
#> ..$ phenotype : chr ""
#> ..$ description : chr ""
#> ..$ cell_type : chr "adrenal gland"
#> ..$ cell_line : NULL
#> ..$ tissue : chr "endocrine gland, adrenal gland"
#> ..$ library_source : NULL
#> ..$ assay : chr "PRO-cap"
#> ..$ antibody : NULL
#> ..$ target : NULL
#> ..$ treatment : NULL
#> ..$ global_sample_id :List of 1
#> .. ..$ : chr "encode:ENCFF370XZK"
#> ..$ global_experiment_id:List of 1
#> .. ..$ : chr "encode:ENCSR970ACM"
#> ..$ original_file_name : chr "ENCFF370XZK.bed.gz"
#> $ processed : logi FALSE
#> $ stats : NULL
#> $ plots : NULL
#> $ files : NULL
#> $ universe_metadata : NULL
#> $ bedsets : NULL
ex_bedset <- bb_example(bedbase, "bedset")
str(ex_bedset)
#> List of 14
#> $ id : chr "gse143444"
#> $ name : chr "gse143444"
#> $ md5sum : chr "b4cafb76881d37557188ed9a94dadec8"
#> $ submission_date : chr "2025-06-01T23:17:43.912215Z"
#> $ last_update_date: chr "2025-06-01T23:17:43.912220Z"
#> $ statistics :List of 2
#> ..$ mean:List of 19
#> .. ..$ number_of_regions : num 605
#> .. ..$ gc_content : NULL
#> .. ..$ median_tss_dist : NULL
#> .. ..$ mean_region_width : num 121
#> .. ..$ exon_frequency : NULL
#> .. ..$ exon_percentage : NULL
#> .. ..$ intron_frequency : NULL
#> .. ..$ intron_percentage : NULL
#> .. ..$ intergenic_percentage : NULL
#> .. ..$ intergenic_frequency : NULL
#> .. ..$ promotercore_frequency : NULL
#> .. ..$ promotercore_percentage: NULL
#> .. ..$ fiveutr_frequency : NULL
#> .. ..$ fiveutr_percentage : NULL
#> .. ..$ threeutr_frequency : NULL
#> .. ..$ threeutr_percentage : NULL
#> .. ..$ promoterprox_frequency : NULL
#> .. ..$ promoterprox_percentage: NULL
#> .. ..$ distributions : NULL
#> ..$ sd :List of 19
#> .. ..$ number_of_regions : num 1114
#> .. ..$ gc_content : NULL
#> .. ..$ median_tss_dist : NULL
#> .. ..$ mean_region_width : num 62.9
#> .. ..$ exon_frequency : NULL
#> .. ..$ exon_percentage : NULL
#> .. ..$ intron_frequency : NULL
#> .. ..$ intron_percentage : NULL
#> .. ..$ intergenic_percentage : NULL
#> .. ..$ intergenic_frequency : NULL
#> .. ..$ promotercore_frequency : NULL
#> .. ..$ promotercore_percentage: NULL
#> .. ..$ fiveutr_frequency : NULL
#> .. ..$ fiveutr_percentage : NULL
#> .. ..$ threeutr_frequency : NULL
#> .. ..$ threeutr_percentage : NULL
#> .. ..$ promoterprox_frequency : NULL
#> .. ..$ promoterprox_percentage: NULL
#> .. ..$ distributions : NULL
#> $ distributions : NULL
#> $ plots :List of 1
#> ..$ region_commonality: NULL
#> $ description : chr "Data from [GEO GSE143444](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE143444)\nTargets of transduced "| __truncated__
#> $ summary : NULL
#> $ bed_ids :List of 8
#> ..$ : chr "2196877e3a0ae4deee82288530545535"
#> ..$ : chr "3164fb3bc9ccb4707eb012225684f9ae"
#> ..$ : chr "4123d5de02b0052bd934e3953a1a5975"
#> ..$ : chr "821e841251afde3af98ef04d23e047d0"
#> ..$ : chr "9066f777adc47ac421b0e7bd67348781"
#> ..$ : chr "b3cd288704999014f3d315608b69917d"
#> ..$ : chr "d9011cf99007037dcbd934ffbbc399bb"
#> ..$ : chr "f51e115f3bd20678510963970d0806cd"
#> $ bedfile_count : int 8
#> $ author : chr "Atsushi, Suzuki"
#> $ source : chr "gse143444"