ATAC-seq_ENCSR854ZBA
ATAC-seq ENCSR854ZBA [biosample_summary="Homo sapiens HG02840"]
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| Id: | ATAC-seq/ENCSR854ZBA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR854ZBA [biosample_summary="Homo sapiens HG02840"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN613OKR|/analyses/ENCAN613OKR/} 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. {ENCFF117XXG|/files/ENCFF117XXG/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.19. 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 {ENCFF720BLR|/files/ENCFF720BLR/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.865315. 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 {ENCFF720BLR|/files/ENCFF720BLR/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. 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) {ENCFF117XXG|/files/ENCFF117XXG/} (overlap peaks) and {ENCFF340FLI|/files/ENCFF340FLI/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 119715 and 68698 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR854ZBA | float |
ATAC-seq_ENCSR854ZBA |
ATAC-seq ENCSR854ZBA [biosample_summary="Homo sapiens HG02840"]
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[1.6, 33] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF117XXG.bed.gz | 2.87 MB | 3dfdba48a3cb8f1fdec1a4f63154e24e |
| ENCFF117XXG.bed.gz.dvc | 101.0 B | a518832d8b0f2a81231dc5be3a189f62 |
| ENCFF117XXG.tabix.bed.gz | 792.86 KB | 70fc96642ad0e63a71be1b4d8902f3d3 |
| ENCFF117XXG.tabix.bed.gz.dvc | 106.0 B | 2d8bfcda047c4ae722e438498a856343 |
| ENCFF117XXG.tabix.bed.gz.tbi | 345.18 KB | c2bf17c02d3fdb37359087c1372243f3 |
| ENCFF117XXG.tabix.bed.gz.tbi.dvc | 110.0 B | 0e322a6d82e62cc0017699f276e32a66 |
| genomic_resource.yaml | 3.47 KB | 0f0314ba79d2a6ff18d03c7007936047 |
| genomic_resource_original.yaml | 3.4 KB | dd8b9eb37a1367cc9fcdff4e8ab31a3e |
| statistics/ |