type: position_score
table:
  filename: ENCFF364QVY.tabix.bed.gz
  header_mode: none
  zero_based: true
  format: tabix
  chrom:
    column_index: 0
  pos_begin:
    column_index: 1
  pos_end:
    column_index: 2
scores:
- id: ATAC-seq_ENCSR159GFS
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR159GFS [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (42 years)"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR159GFS [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (42 years)"]'
  description: '**status**: released


    **biological\_replicates**: Rep 1


    **summary**: male adult (42 years)


    **output\_type**: pseudoreplicated peaks


    **audit\_internal\_action**: Released analysis {ENCAN882BEC|/analyses/ENCAN882BEC/}
    has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/}


    **audit\_warning**: Alignment file {ENCFF456ETK|/files/ENCFF456ETK/} processed
    by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 24322709 usable fragments. According
    to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline
    should have > 25 million usable fragments. 20-25 million is acceptable and < 15
    million is not compliant.


    **audit\_warning**: NRF (Non Redundant Fraction) is equal to the result of the
    division of the number of reads after duplicates removal by the total number of
    reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate
    complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but >
    0.7 is acceptable. ENCODE processed file {ENCFF456ETK|/files/ENCFF456ETK/} processed
    by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with
    NRF value of 0.897686.


    **audit\_warning**: According to ENCODE4 standards, ATAC-seq assays processed
    by the uniform processing pipeline should have either >150k reproducible peaks
    in an overlap peaks file, or >70k in an IDR thresholded peaks file. 100-150k or
    50-70k peaks respectively is acceptable, and <100k or <50k respectively is not
    compliant. File(s) {ENCFF364QVY|/files/ENCFF364QVY/} (overlap peaks) and {ENCFF519QMA|/files/ENCFF519QMA/}
    (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline
    have 91414 and 57636 peaks.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR159GFS
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: male adult (42 years)
    biosample_summary: Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory
      T cell male adult (42 years)
    replication_type: unreplicated
    biosample_ontology: /biosample-types/primary_cell_CL_0000792/
    perturbed: false
    doi: 10.17989/ENCSR159GFS
    date_created: '2021-09-23T04:49:36.841658+00:00'
    date_released: '2021-10-13'
    submitter_comment: ''