ATAC-seq_ENCSR851EBF
ATAC-seq ENCSR851EBF [biosample_summary="Homo sapiens heart left ventricle tissue female adult (53 years)"]
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| Id: | ATAC-seq/ENCSR851EBF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR851EBF [biosample_summary="Homo sapiens heart left ventricle tissue female adult (53 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN243PUK|/analyses/ENCAN243PUK/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN243PUK|/analyses/ENCAN243PUK/} has in progress subobject document {5142f7ef-af77-45be-8c0e-f92a55721b84|/documents/5142f7ef-af77-45be-8c0e-f92a55721b84/} audit_not_compliant: Alignment file {ENCFF097EXD|/files/ENCFF097EXD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 18512476 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_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. {ENCFF172AHA|/files/ENCFF172AHA/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.12. audit_not_compliant: 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) {ENCFF172AHA|/files/ENCFF172AHA/} (overlap peaks) and {ENCFF560EBG|/files/ENCFF560EBG/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 90429 and 36864 peaks. 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 {ENCFF097EXD|/files/ENCFF097EXD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.8126. 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 {ENCFF097EXD|/files/ENCFF097EXD/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.85. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR851EBF | float |
ATAC-seq_ENCSR851EBF |
ATAC-seq ENCSR851EBF [biosample_summary="Homo sapiens heart left ventricle tissue female adult (53 years)"]
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[1.56, 28.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF172AHA.bed.gz | 2.15 MB | 375208f1f0d5df5edea52a12af98d9d2 |
| ENCFF172AHA.bed.gz.dvc | 101.0 B | edbf6994f96bac3d97501d525ac8f280 |
| ENCFF172AHA.tabix.bed.gz | 701.83 KB | d198c22fbf6f0f1215fbf73e52d3a2e1 |
| ENCFF172AHA.tabix.bed.gz.dvc | 106.0 B | acf9780b88be9052e498db77a44745ac |
| ENCFF172AHA.tabix.bed.gz.tbi | 338.07 KB | c56018f8ceb7cd7ff8981393a5d0e6f1 |
| ENCFF172AHA.tabix.bed.gz.tbi.dvc | 110.0 B | 2c1c489889ccc6cce8544fceb5a4403f |
| genomic_resource.yaml | 4.14 KB | dc0aa99650e5b87d8fe6d0bb2cde7de3 |
| genomic_resource_original.yaml | 4.03 KB | 2c2d7dce70508f566f9323acadaffcda |
| statistics/ |