Resource
| Id | ATAC-seq/ENCSR408IVU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR408IVU [biosample_summary="Homo sapiens GM21526"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN342ZHP|/analyses/ENCAN342ZHP/} 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. {ENCFF969IAI|/files/ENCFF969IAI/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.20. 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 {ENCFF090VTK|/files/ENCFF090VTK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.898927. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR408IVU | float |
ATAC-seq_ENCSR408IVU |
ATAC-seq ENCSR408IVU [biosample_summary="Homo sapiens GM21526"]
|
 |
[1.47, 30.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 47497855 | 1.48% | 89069 |
| chr1 | 4229688 | 1.70% | 7812 |
| chr2 | 4130409 | 1.71% | 7941 |
| chr3 | 3316077 | 1.67% | 6455 |
| chr4 | 2680411 | 1.41% | 5246 |
| chr5 | 2909451 | 1.60% | 5598 |
| chr6 | 3179926 | 1.86% | 6018 |
| chr7 | 2655150 | 1.67% | 5042 |
| chr8 | 2385156 | 1.64% | 4631 |
| chr9 | 1873855 | 1.35% | 3509 |
| chr10 | 2268787 | 1.70% | 4300 |
| chr11 | 2309787 | 1.71% | 4322 |
| chr12 | 2380019 | 1.79% | 4388 |
| chr13 | 1296497 | 1.13% | 2469 |
| chr14 | 1407854 | 1.32% | 2569 |
| chr15 | 1269821 | 1.25% | 2307 |
| chr16 | 1344025 | 1.49% | 2376 |
| chr17 | 1566165 | 1.88% | 2704 |
| chr18 | 1130360 | 1.41% | 2210 |
| chr19 | 1347200 | 2.30% | 2140 |
| chr20 | 1029525 | 1.60% | 1913 |
| chr21 | 492471 | 1.05% | 875 |
| chr22 | 616523 | 1.21% | 1041 |
| chrX | 1677919 | 1.08% | 3200 |
| chrY | 779 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 89069 | 150 | 2769 | 533.27 | 438 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF969IAI.bed.gz | 3.54 MB | 01b98bcdd56cf42b1275e0c107232dbd |
| ENCFF969IAI.tabix.bed.gz | 1006.33 KB | 7777fae0b9e4c9420b125b69522d1c6a |
| ENCFF969IAI.tabix.bed.gz.tbi | 416.85 KB | c075b8015d884fc0b91953612371eef1 |
| genomic_resource.yaml | 2.24 KB | 17db5752ee2aa5312cbbd5f04f784020 |
| statistics/ |