Resource
| Id | ATAC-seq/ENCSR859USB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR859USB [biosample_summary="Homo sapiens K562"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_error: Alignment file {ENCFF557RSA|/files/ENCFF557RSA/} processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline has 8585759 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 {ENCAN615CMZ|/analyses/ENCAN615CMZ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: Alignment file {ENCFF852RRY|/files/ENCFF852RRY/} processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline has 15065125 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_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) {ENCFF055NNT|/files/ENCFF055NNT/} (overlap peaks) and {ENCFF926KTI|/files/ENCFF926KTI/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v2.1.1 GRCh38 pipeline have 99862 and 55575 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR859USB | float |
ATAC-seq_ENCSR859USB |
ATAC-seq ENCSR859USB [biosample_summary="Homo sapiens K562"]
|
 |
[1.51, 33.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 31900250 | 0.99% | 71963 |
| chr1 | 3652177 | 1.47% | 8178 |
| chr2 | 2292765 | 0.95% | 5281 |
| chr3 | 1814819 | 0.92% | 4206 |
| chr4 | 1205017 | 0.63% | 2785 |
| chr5 | 1559145 | 0.86% | 3609 |
| chr6 | 2046515 | 1.20% | 4690 |
| chr7 | 1864111 | 1.17% | 4234 |
| chr8 | 1290580 | 0.89% | 3030 |
| chr9 | 1209185 | 0.87% | 2648 |
| chr10 | 1398403 | 1.05% | 3243 |
| chr11 | 1681258 | 1.24% | 3761 |
| chr12 | 1485539 | 1.11% | 3345 |
| chr13 | 529336 | 0.46% | 1202 |
| chr14 | 806564 | 0.75% | 1811 |
| chr15 | 1065137 | 1.04% | 2403 |
| chr16 | 1312365 | 1.45% | 2859 |
| chr17 | 1534879 | 1.84% | 3390 |
| chr18 | 542871 | 0.68% | 1289 |
| chr19 | 1670286 | 2.85% | 3441 |
| chr20 | 889278 | 1.38% | 2052 |
| chr21 | 407391 | 0.87% | 900 |
| chr22 | 806128 | 1.59% | 1713 |
| chrX | 834607 | 0.53% | 1886 |
| chrY | 1894 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 71963 | 150 | 2425 | 443.29 | 357 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF055NNT.bed.gz | 2.44 MB | 7f7a4fea9902b4de27656b78a71cdda0 |
| ENCFF055NNT.tabix.bed.gz | 800.17 KB | 5b9abd5100d096de968efd9880e0d7ed |
| ENCFF055NNT.tabix.bed.gz.tbi | 352.43 KB | cb942756423d44e21d1971ac2b06892e |
| genomic_resource.yaml | 2.59 KB | aeae9f51ccf0e1f0d02a5820067b891f |
| statistics/ |