Resource
| Id | ATAC-seq/ENCSR956DNB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR956DNB [biosample_summary="Homo sapiens K562"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_error: Alignment file {ENCFF445RUW|/files/ENCFF445RUW/} processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline has 8385847 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_error: Alignment file {ENCFF778GYX|/files/ENCFF778GYX/} processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline has 13910063 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 {ENCAN222XPD|/analyses/ENCAN222XPD/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} 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) {ENCFF842UZU|/files/ENCFF842UZU/} (overlap peaks) and {ENCFF489GQF|/files/ENCFF489GQF/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline have 123697 and 69819 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR956DNB | float |
ATAC-seq_ENCSR956DNB |
ATAC-seq ENCSR956DNB [biosample_summary="Homo sapiens K562"]
|
 |
[1.59, 31.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 38507392 | 1.20% | 89199 |
| chr1 | 4397714 | 1.77% | 10040 |
| chr2 | 2817088 | 1.16% | 6679 |
| chr3 | 2265923 | 1.14% | 5393 |
| chr4 | 1482522 | 0.78% | 3498 |
| chr5 | 1869616 | 1.03% | 4444 |
| chr6 | 2503399 | 1.47% | 5880 |
| chr7 | 2251531 | 1.41% | 5229 |
| chr8 | 1558689 | 1.07% | 3763 |
| chr9 | 1489497 | 1.08% | 3366 |
| chr10 | 1694611 | 1.27% | 3990 |
| chr11 | 1982778 | 1.47% | 4613 |
| chr12 | 1840132 | 1.38% | 4308 |
| chr13 | 636663 | 0.56% | 1506 |
| chr14 | 1005427 | 0.94% | 2342 |
| chr15 | 1267180 | 1.24% | 2967 |
| chr16 | 1537539 | 1.70% | 3408 |
| chr17 | 1833379 | 2.20% | 4142 |
| chr18 | 630796 | 0.78% | 1551 |
| chr19 | 1931032 | 3.29% | 4066 |
| chr20 | 1037131 | 1.61% | 2427 |
| chr21 | 477761 | 1.02% | 1074 |
| chr22 | 915218 | 1.80% | 2015 |
| chrX | 1079156 | 0.69% | 2489 |
| chrY | 2610 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 89199 | 150 | 2423 | 431.7 | 342 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF842UZU.bed.gz | 2.96 MB | c1738f40f77a19d1773771b87826dbb8 |
| ENCFF842UZU.tabix.bed.gz | 975.34 KB | 74ced2e5939e4951c6320f203acff8fc |
| ENCFF842UZU.tabix.bed.gz.tbi | 389.63 KB | 4b661be2dbf48076b558fedbc35bc0f8 |
| genomic_resource.yaml | 2.59 KB | 1d3bdbdd352e16932513ab0bd4749a82 |
| statistics/ |