ATAC-seq_ENCSR857MCZ
ATAC-seq ENCSR857MCZ [biosample_summary="Homo sapiens HG02970"]
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| Id: | ATAC-seq/ENCSR857MCZ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR857MCZ [biosample_summary="Homo sapiens HG02970"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN246BLF|/analyses/ENCAN246BLF/} 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. {ENCFF901SKJ|/files/ENCFF901SKJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.15. 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 {ENCFF320DVY|/files/ENCFF320DVY/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.820248. 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 {ENCFF320DVY|/files/ENCFF320DVY/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.82. 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) {ENCFF901SKJ|/files/ENCFF901SKJ/} (overlap peaks) and {ENCFF256UDE|/files/ENCFF256UDE/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 110564 and 59100 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR857MCZ | float |
ATAC-seq_ENCSR857MCZ |
ATAC-seq ENCSR857MCZ [biosample_summary="Homo sapiens HG02970"]
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[1.37, 30.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF901SKJ.bed.gz | 2.63 MB | df42dbbf65d234e7e88f5723ecf49fd9 |
| ENCFF901SKJ.bed.gz.dvc | 101.0 B | b838928c31a3aeab997d46ee7329927a |
| ENCFF901SKJ.tabix.bed.gz | 763.18 KB | f9736b80b78e81b01eff33eb294d5519 |
| ENCFF901SKJ.tabix.bed.gz.dvc | 106.0 B | 7fa8a9ad60dc61202dff4969a4eaecf8 |
| ENCFF901SKJ.tabix.bed.gz.tbi | 363.89 KB | 833deb411ccc03a4c94636cd51363833 |
| ENCFF901SKJ.tabix.bed.gz.tbi.dvc | 110.0 B | ab4cfac31dca14eea9cf98300078f547 |
| genomic_resource.yaml | 3.47 KB | 62fb96b1447868c4f18e96c7aceac596 |
| genomic_resource_original.yaml | 3.4 KB | 35bd4639de9085968fafb0224c613588 |
| statistics/ |