When I download the bedfile associated with the following data (it's the example bedfile; I use it for most of the examples in bedbaser), although"bed_compliance": "bed4+0", and "non_compliant_columns": 0,, I see the following in the first few lines:
chr1 1000896 1000906 -1.000000e+11 JUN::JUNB
chr1 1066881 1066891 -1.000000e+11 JUN::JUNB
chr1 1208146 1208156 -1.000000e+11 JUN::JUNB
chr1 1218006 1218016 -1.000000e+11 JUN::JUNB
chr1 1318385 1318395 -1.000000e+11 JUN::JUNB
I think this must be an error processing because I expect 4 standard bedfile columns and no nonstandard columns from the metadata. Below is the metadata that I see for comparison.
{
"name": "ENCFF445QIM",
"genome_alias": "hg38",
"genome_digest": "Ba88PY52_qeifhJrgUXyin6UITdXNsg3",
"bed_compliance": "bed4+0",
"data_format": "ucsc_bed",
"compliant_columns": 4,
"non_compliant_columns": 0,
"header": null,
"id": "2511272115fa7786e8bc8808b6c3d7de",
"description": null,
"submission_date": "2026-04-11T01:36:50.629086Z",
"last_update_date": "2026-04-14T18:48:03.926378Z",
"is_universe": false,
"license_id": "DUO:0000042",
"annotation": {
"species_name": "Homo sapiens",
"species_id": "9606",
"genotype": "",
"phenotype": "",
"description": "",
"cell_type": null,
"cell_line": "Caki2",
"tissue": "kidney, epithelium",
"library_source": null,
"assay": "DNase-seq",
"antibody": null,
"target": null,
"treatment": null,
"global_sample_id": [
"encode:ENCFF445QIM"
],
"global_experiment_id": [
"encode:ENCSR825NXL"
],
"original_file_name": "ENCFF445QIM.bed.gz"
},
"processed": false,
"stats": null,
"plots": null,
"files": null,
"universe_metadata": null,
"raw_metadata": null,
"bedsets": null
}
Let me know if I should file another place. Thanks for your help.
When I download the bedfile associated with the following data (it's the example bedfile; I use it for most of the examples in bedbaser), although
"bed_compliance": "bed4+0",and"non_compliant_columns": 0,, I see the following in the first few lines:I think this must be an error processing because I expect 4 standard bedfile columns and no nonstandard columns from the metadata. Below is the metadata that I see for comparison.
Let me know if I should file another place. Thanks for your help.