ATAC-seq_ENCSR635AIF
ATAC-seq ENCSR635AIF [biosample_summary="Homo sapiens GM19468"]
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| Id: | ATAC-seq/ENCSR635AIF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR635AIF [biosample_summary="Homo sapiens GM19468"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_error: Alignment file {ENCFF362ACE|/files/ENCFF362ACE/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 6496961 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_internal_action: Released analysis {ENCAN496PIY|/analyses/ENCAN496PIY/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} 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 {ENCFF362ACE|/files/ENCFF362ACE/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.834628. 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 {ENCFF362ACE|/files/ENCFF362ACE/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.83. 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) {ENCFF883YXV|/files/ENCFF883YXV/} (overlap peaks) and {ENCFF550WFX|/files/ENCFF550WFX/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 88727 and 51568 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR635AIF | float |
ATAC-seq_ENCSR635AIF |
ATAC-seq ENCSR635AIF [biosample_summary="Homo sapiens GM19468"]
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[1.89, 28.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF883YXV.bed.gz | 2.04 MB | eac315ae545ef50cf08cbc7153dc88c0 |
| ENCFF883YXV.bed.gz.dvc | 101.0 B | bb926709477205f431a57e400b4d92a9 |
| ENCFF883YXV.tabix.bed.gz | 782.38 KB | 034d9124b7d1df747229ec7042b9cdd4 |
| ENCFF883YXV.tabix.bed.gz.dvc | 106.0 B | c8fb398a47b461027d338852e8091d16 |
| ENCFF883YXV.tabix.bed.gz.tbi | 407.9 KB | 705539265644474b0a4a015f53f6e2cd |
| ENCFF883YXV.tabix.bed.gz.tbi.dvc | 110.0 B | 0da1fa609431f3f600d039c56d6d28ff |
| genomic_resource.yaml | 3.42 KB | 11f54923e4279b97fa8d5dc5c62c4186 |
| genomic_resource_original.yaml | 3.35 KB | f2f47beeb0cbd3d24699460f14b92f3e |
| statistics/ |