Resource
| Id | ATAC-seq/ENCSR233HSC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR233HSC [biosample_summary="Homo sapiens GM21723"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN885BLD|/analyses/ENCAN885BLD/} 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 {ENCFF443RUI|/files/ENCFF443RUI/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.892985. 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 {ENCFF443RUI|/files/ENCFF443RUI/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.90. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR233HSC | float |
ATAC-seq_ENCSR233HSC |
ATAC-seq ENCSR233HSC [biosample_summary="Homo sapiens GM21723"]
|
 |
[1.4, 36.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 57321910 | 1.78% | 101525 |
| chr1 | 5140302 | 2.06% | 8970 |
| chr2 | 5036331 | 2.08% | 9063 |
| chr3 | 4105530 | 2.07% | 7558 |
| chr4 | 3222958 | 1.69% | 6023 |
| chr5 | 3514157 | 1.94% | 6358 |
| chr6 | 3868797 | 2.27% | 6898 |
| chr7 | 3260678 | 2.05% | 5828 |
| chr8 | 2824556 | 1.95% | 5205 |
| chr9 | 2236918 | 1.62% | 3957 |
| chr10 | 2788318 | 2.08% | 4948 |
| chr11 | 2764649 | 2.05% | 4880 |
| chr12 | 2870006 | 2.15% | 5036 |
| chr13 | 1545470 | 1.35% | 2804 |
| chr14 | 1737729 | 1.62% | 3012 |
| chr15 | 1573567 | 1.54% | 2743 |
| chr16 | 1581937 | 1.75% | 2612 |
| chr17 | 1936060 | 2.33% | 3141 |
| chr18 | 1287209 | 1.60% | 2375 |
| chr19 | 1551441 | 2.65% | 2342 |
| chr20 | 1216038 | 1.89% | 2153 |
| chr21 | 562331 | 1.20% | 950 |
| chr22 | 718866 | 1.41% | 1150 |
| chrX | 1977495 | 1.27% | 3517 |
| chrY | 567 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101525 | 150 | 3027 | 564.61 | 456 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF693CDG.bed.gz | 4.17 MB | 40787ba1d5b871b9b4a842cbd4d67d49 |
| ENCFF693CDG.tabix.bed.gz | 1.11 MB | 341a0fd67f2f0d478d2d3b3df9cb893e |
| ENCFF693CDG.tabix.bed.gz.tbi | 442.26 KB | 612d0c0590f79201b72b75a27071e61c |
| genomic_resource.yaml | 2.49 KB | f21606253e79d8f136f209a6671701fb |
| statistics/ |