ATAC-seq_ENCSR078EBD
ATAC-seq ENCSR078EBD [biosample_summary="Homo sapiens spleen tissue female adult (51 years)"]
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| Id: | ATAC-seq/ENCSR078EBD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR078EBD [biosample_summary="Homo sapiens spleen tissue female adult (51 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN568UNO|/analyses/ENCAN568UNO/} has in progress subobject document {e9268c3a-09b2-4c49-9551-5bbb4fe42be4|/documents/e9268c3a-09b2-4c49-9551-5bbb4fe42be4/} audit_internal_action: Released analysis {ENCAN568UNO|/analyses/ENCAN568UNO/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} 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. {ENCFF727IIE|/files/ENCFF727IIE/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.13. 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 {ENCFF159BUD|/files/ENCFF159BUD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.884059. 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 {ENCFF159BUD|/files/ENCFF159BUD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.89. 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) {ENCFF727IIE|/files/ENCFF727IIE/} (overlap peaks) and {ENCFF105FRE|/files/ENCFF105FRE/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 128539 and 59146 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR078EBD | float |
ATAC-seq_ENCSR078EBD |
ATAC-seq ENCSR078EBD [biosample_summary="Homo sapiens spleen tissue female adult (51 years)"]
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[1.58, 32.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF727IIE.bed.gz | 3.04 MB | 87691852a9ec994bd261549056f12c3d |
| ENCFF727IIE.bed.gz.dvc | 101.0 B | fc2fb666909676792fefb08c299a8d2c |
| ENCFF727IIE.tabix.bed.gz | 952.32 KB | cd55db6d9042721f0bfa57845c7256ca |
| ENCFF727IIE.tabix.bed.gz.dvc | 106.0 B | f6a59a96048777fbadf75f621cc617e8 |
| ENCFF727IIE.tabix.bed.gz.tbi | 412.9 KB | d6ce51a246314ef342214055fceb41f5 |
| ENCFF727IIE.tabix.bed.gz.tbi.dvc | 110.0 B | 3d061c87dc1538a979416d76483a1079 |
| genomic_resource.yaml | 3.72 KB | 08ccc15287d90d96efcecbd8709612c2 |
| genomic_resource_original.yaml | 3.63 KB | 0a19df1619463e8ad640e77572f0dc84 |
| statistics/ |