Resource
| Id | ATAC-seq/ENCSR122NDR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR122NDR [biosample_summary="Homo sapiens GM21576"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN670HOM|/analyses/ENCAN670HOM/} 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 {ENCFF557GPJ|/files/ENCFF557GPJ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.761451. 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 {ENCFF557GPJ|/files/ENCFF557GPJ/} 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_ENCSR122NDR | float |
ATAC-seq_ENCSR122NDR |
ATAC-seq ENCSR122NDR [biosample_summary="Homo sapiens GM21576"]
|
 |
[1.33, 33.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 51316466 | 1.59% | 101489 |
| chr1 | 4604986 | 1.85% | 8921 |
| chr2 | 4470241 | 1.85% | 9047 |
| chr3 | 3640438 | 1.84% | 7447 |
| chr4 | 2914355 | 1.53% | 6042 |
| chr5 | 3138256 | 1.73% | 6363 |
| chr6 | 3464773 | 2.03% | 6916 |
| chr7 | 2887722 | 1.81% | 5801 |
| chr8 | 2553607 | 1.76% | 5261 |
| chr9 | 2040658 | 1.47% | 4010 |
| chr10 | 2467883 | 1.84% | 4933 |
| chr11 | 2444758 | 1.81% | 4790 |
| chr12 | 2574949 | 1.93% | 5060 |
| chr13 | 1369586 | 1.20% | 2739 |
| chr14 | 1521933 | 1.42% | 2947 |
| chr15 | 1426768 | 1.40% | 2761 |
| chr16 | 1445600 | 1.60% | 2655 |
| chr17 | 1729901 | 2.08% | 3153 |
| chr18 | 1153406 | 1.44% | 2366 |
| chr19 | 1421270 | 2.42% | 2363 |
| chr20 | 1096022 | 1.70% | 2172 |
| chr21 | 511664 | 1.10% | 945 |
| chr22 | 664958 | 1.31% | 1190 |
| chrX | 1771648 | 1.14% | 3603 |
| chrY | 1084 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101489 | 150 | 2832 | 505.64 | 412 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF338XWC.bed.gz | 3.73 MB | 2e8a9f227a84422205b5417a26bc16d3 |
| ENCFF338XWC.tabix.bed.gz | 1.1 MB | 2e08852fda2b660a847e6f70eeb3e2b4 |
| ENCFF338XWC.tabix.bed.gz.tbi | 445.65 KB | 0d7d3268bcd26b548922388ce7246d6c |
| genomic_resource.yaml | 2.49 KB | 8e1791c3b67cf56fb3dbeec27e0d6d3a |
| statistics/ |