type: position_score
table:
  filename: ENCFF215TCL.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_ENCSR312UCH
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR312UCH [biosample_summary="Homo sapiens GM18519"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR312UCH [biosample_summary="Homo sapiens GM18519"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ \n\n**output\\_type**: pseudoreplicated peaks\n\n**audit\\_internal\\_action**:\
    \ Released analysis {ENCAN830RWE|/analyses/ENCAN830RWE/} has in progress subobject\
    \ quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/}\n\n\
    **audit\\_not\\_compliant**: According to ENCODE4 standards, overlap peaks files\
    \ in ATAC-seq assays processed by the uniform processing pipeline should have\
    \ FRiP (fraction of reads in called peak regions) scores > 0.3. FRiP scores 0.2-0.3\
    \ are acceptable, and < 0.2 are not compliant. {ENCFF215TCL|/files/ENCFF215TCL/}\
    \ processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline  has a FRiP score of 0.20.\n\
    \n**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 {ENCFF603MOL|/files/ENCFF603MOL/}\
    \ processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library\
    \ with NRF value of 0.845045.\n\n**audit\\_warning**: PBC1 (PCR Bottlenecking\
    \ Coefficient 1, M1/M\\_distinct) is the ratio of the number of genomic locations\
    \ where  exactly one read maps uniquely (M1) to the number of genomic locations\
    \ where some reads map (M\\_distinct). A PBC1 value in the range 0 - 0.5 is severe\
    \ bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking,\
    \ and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is\
    \ acceptable. ENCODE processed file {ENCFF603MOL|/files/ENCFF603MOL/} processed\
    \ by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with\
    \ a PBC1 value of 0.89."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR312UCH
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens GM18519
    replication_type: unreplicated
    biosample_ontology: /biosample-types/cell_line_CLO_0024886/
    perturbed: false
    doi: 10.17989/ENCSR312UCH
    date_created: '2020-11-24T22:02:44.556614+00:00'
    date_released: '2021-02-11'
    submitter_comment: ''