Resource
| Id | ATAC-seq/ENCSR420RVW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR420RVW [biosample_summary="Homo sapiens HG02870"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN880JVR|/analyses/ENCAN880JVR/} 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 {ENCFF358GWK|/files/ENCFF358GWK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.766833. 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 {ENCFF358GWK|/files/ENCFF358GWK/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.78. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR420RVW | float |
ATAC-seq_ENCSR420RVW |
ATAC-seq ENCSR420RVW [biosample_summary="Homo sapiens HG02870"]
|
 |
[1.45, 40.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 58004682 | 1.80% | 113650 |
| chr1 | 4993468 | 2.01% | 9683 |
| chr2 | 5163504 | 2.13% | 10256 |
| chr3 | 4261260 | 2.15% | 8556 |
| chr4 | 3574853 | 1.88% | 7276 |
| chr5 | 3655236 | 2.01% | 7318 |
| chr6 | 3974729 | 2.33% | 7813 |
| chr7 | 3286354 | 2.06% | 6529 |
| chr8 | 2973147 | 2.05% | 5983 |
| chr9 | 2221291 | 1.61% | 4372 |
| chr10 | 2801985 | 2.09% | 5495 |
| chr11 | 2775737 | 2.05% | 5396 |
| chr12 | 2822913 | 2.12% | 5529 |
| chr13 | 1676802 | 1.47% | 3365 |
| chr14 | 1796576 | 1.68% | 3438 |
| chr15 | 1539170 | 1.51% | 2948 |
| chr16 | 1488647 | 1.65% | 2726 |
| chr17 | 1702836 | 2.05% | 3081 |
| chr18 | 1449550 | 1.80% | 2910 |
| chr19 | 1299539 | 2.22% | 2156 |
| chr20 | 1202021 | 1.87% | 2343 |
| chr21 | 555802 | 1.19% | 1055 |
| chr22 | 642732 | 1.26% | 1155 |
| chrX | 2146060 | 1.38% | 4266 |
| chrY | 470 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 113650 | 150 | 2678 | 510.38 | 428 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF730TRQ.bed.gz | 4.14 MB | 0727a8991fe8d8c62edc4af6dd53585d |
| ENCFF730TRQ.tabix.bed.gz | 1.23 MB | 50b8d810770f47313f2e312eeb110967 |
| ENCFF730TRQ.tabix.bed.gz.tbi | 475.82 KB | 6dc57a23d9fedcc8ddb0daf06f4d4ee0 |
| genomic_resource.yaml | 2.49 KB | 73438defacab578a27206ece2c59221c |
| statistics/ |