Resource
| Id | ATAC-seq/ENCSR422RPD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR422RPD [biosample_summary="Homo sapiens GM21717"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN793HZA|/analyses/ENCAN793HZA/} 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 {ENCFF496QAW|/files/ENCFF496QAW/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.876442. 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 {ENCFF496QAW|/files/ENCFF496QAW/} 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_ENCSR422RPD | float |
ATAC-seq_ENCSR422RPD |
ATAC-seq ENCSR422RPD [biosample_summary="Homo sapiens GM21717"]
|
 |
[1.41, 28.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 53771981 | 1.67% | 104342 |
| chr1 | 4821403 | 1.94% | 9134 |
| chr2 | 4698716 | 1.94% | 9406 |
| chr3 | 3888792 | 1.96% | 7857 |
| chr4 | 3319197 | 1.74% | 6941 |
| chr5 | 3369969 | 1.86% | 6766 |
| chr6 | 3645344 | 2.13% | 7152 |
| chr7 | 3010742 | 1.89% | 5964 |
| chr8 | 2690188 | 1.85% | 5463 |
| chr9 | 2090023 | 1.51% | 4064 |
| chr10 | 2495052 | 1.86% | 4859 |
| chr11 | 2557633 | 1.89% | 4862 |
| chr12 | 2629714 | 1.97% | 5011 |
| chr13 | 1497359 | 1.31% | 3044 |
| chr14 | 1567034 | 1.46% | 2945 |
| chr15 | 1456673 | 1.43% | 2740 |
| chr16 | 1554595 | 1.72% | 2722 |
| chr17 | 1742371 | 2.09% | 3002 |
| chr18 | 1168942 | 1.45% | 2390 |
| chr19 | 1406795 | 2.40% | 2165 |
| chr20 | 1066790 | 1.66% | 2013 |
| chr21 | 496106 | 1.06% | 886 |
| chr22 | 671271 | 1.32% | 1110 |
| chrX | 1926198 | 1.23% | 3842 |
| chrY | 1074 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 104342 | 150 | 2827 | 515.34 | 411 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF387RGN.bed.gz | 3.93 MB | 97cd6c5cc7405c779aa4660f30fc8116 |
| ENCFF387RGN.tabix.bed.gz | 1.13 MB | 7d1e622ab14aeef85d7a7413920baa86 |
| ENCFF387RGN.tabix.bed.gz.tbi | 460.76 KB | 6456e4e0778d2507c09efb0d3c593474 |
| genomic_resource.yaml | 2.49 KB | 79b4e46a560dbece6cba84bd9f04cb22 |
| statistics/ |