ATAC-seq_ENCSR603LVR
ATAC-seq ENCSR603LVR [biosample_summary="Homo sapiens B cell male adult (22 years)"]
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| Id: | ATAC-seq/ENCSR603LVR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR603LVR [biosample_summary="Homo sapiens B cell male adult (22 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (22 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN851QNO|/analyses/ENCAN851QNO/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: Alignment file {ENCFF060ZGV|/files/ENCFF060ZGV/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 21836765 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 {ENCFF060ZGV|/files/ENCFF060ZGV/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.730072. 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 {ENCFF060ZGV|/files/ENCFF060ZGV/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.75. 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) {ENCFF421XIL|/files/ENCFF421XIL/} (overlap peaks) and {ENCFF390ASB|/files/ENCFF390ASB/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline have 100655 and 68214 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR603LVR | float |
ATAC-seq_ENCSR603LVR |
ATAC-seq ENCSR603LVR [biosample_summary="Homo sapiens B cell male adult (22 years)"]
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[1.39, 43.2] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF421XIL.bed.gz | 2.39 MB | 9ffe976e631111e8155a16401208e890 |
| ENCFF421XIL.bed.gz.dvc | 101.0 B | 08255ec2f63d30b88828e145259a1718 |
| ENCFF421XIL.tabix.bed.gz | 706.34 KB | dd01cb545d2ed99068543448d1187131 |
| ENCFF421XIL.tabix.bed.gz.dvc | 106.0 B | d6f547e81c13847f4b539f707840d5bd |
| ENCFF421XIL.tabix.bed.gz.tbi | 290.85 KB | 49a06804632643bd258d300a5fed3eed |
| ENCFF421XIL.tabix.bed.gz.tbi.dvc | 110.0 B | f2fd4c7d4333cb3d7def03f6995fc035 |
| genomic_resource.yaml | 3.45 KB | 6eb51a8c86ea459da134be93410f67df |
| genomic_resource_original.yaml | 3.36 KB | 75ce5fbf9e8871b96b16ee0544da2ab9 |
| statistics/ |