type: position_score
table:
  filename: ENCFF958SXF.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_ENCSR659SFK
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR659SFK [biosample_summary="Homo sapiens activated B cell male adult\ \ (22 years) treated with 0.5 \u03BCM CpG ODN for 24 hours"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR659SFK [biosample_summary="Homo sapiens activated B cell male adult\ \ (22 years) treated with 0.5 \u03BCM CpG ODN for 24 hours"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ male adult (22 years) treated with 0.5 \u03BCM CpG ODN for 24 hours\n\n**output\\\
    _type**: pseudoreplicated peaks\n\n**audit\\_internal\\_action**: Released analysis\
    \ {ENCAN661DOR|/analyses/ENCAN661DOR/} has in progress subobject quality standard\
    \ {encode4-atac-seq|/quality-standards/encode4-atac-seq/}\n\n**audit\\_warning**:\
    \ Alignment file {ENCFF547RWX|/files/ENCFF547RWX/} processed by ATAC-seq ENCODE4\
    \ v1.10.0 GRCh38 pipeline has 22451903 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.\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 {ENCFF547RWX|/files/ENCFF547RWX/}\
    \ processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library\
    \ with NRF value of 0.728279.\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 {ENCFF547RWX|/files/ENCFF547RWX/} processed\
    \ by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with\
    \ a PBC1 value of 0.74."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR659SFK
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: "male adult (22 years) treated with 0.5 \u03BCM CpG\
      \ ODN for 24 hours"
    biosample_summary: "Homo sapiens activated B cell male adult (22 years) treated\
      \ with 0.5 \u03BCM CpG ODN for 24 hours"
    replication_type: unreplicated
    biosample_ontology: /biosample-types/primary_cell_NTR_0000506/
    perturbed: false
    doi: 10.17989/ENCSR659SFK
    date_created: '2020-10-30T18:00:05.928235+00:00'
    date_released: '2021-06-24'
    submitter_comment: ''