ATAC-seq_ENCSR823ZCR
ATAC-seq ENCSR823ZCR [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)"]
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| Id: | ATAC-seq/ENCSR823ZCR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR823ZCR [biosample_summary="Homo sapiens gastrocnemius medialis 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 {ENCAN748YVM|/analyses/ENCAN748YVM/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN748YVM|/analyses/ENCAN748YVM/} has in progress subobject document {c8de691e-72b2-4d8f-b9b4-ee0e42ee4a91|/documents/c8de691e-72b2-4d8f-b9b4-ee0e42ee4a91/} 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. {ENCFF751EAY|/files/ENCFF751EAY/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.10. 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) {ENCFF751EAY|/files/ENCFF751EAY/} (overlap peaks) and {ENCFF953QCT|/files/ENCFF953QCT/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 88946 and 44214 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 {ENCFF125LEJ|/files/ENCFF125LEJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.842976. 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 {ENCFF125LEJ|/files/ENCFF125LEJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.86. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR823ZCR | float |
ATAC-seq_ENCSR823ZCR |
ATAC-seq ENCSR823ZCR [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)"]
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[1.6, 22.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF751EAY.bed.gz | 2.11 MB | eeb9d0d96202b38cb0b75dee7c0c76ff |
| ENCFF751EAY.bed.gz.dvc | 101.0 B | b00855035eb0e0853b076271833ccc6b |
| ENCFF751EAY.tabix.bed.gz | 612.74 KB | f245392a6bab0032bc581167865fda0e |
| ENCFF751EAY.tabix.bed.gz.dvc | 106.0 B | 9821904d4da4e4f2bc453bab443e5616 |
| ENCFF751EAY.tabix.bed.gz.tbi | 296.22 KB | 9a775ed520b9b1b41c457bfbea116cb3 |
| ENCFF751EAY.tabix.bed.gz.tbi.dvc | 110.0 B | c629150dbfb32b5ea3b2e2e56339cc5f |
| genomic_resource.yaml | 3.78 KB | 8b345841ab67686daf207283e5479301 |
| genomic_resource_original.yaml | 3.67 KB | 490cef587eb141938f6911f04ad8dd3d |
| statistics/ |