Resource
| Id | ATAC-seq/ENCSR189VFC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR189VFC [biosample_summary="Homo sapiens HG02588"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN091SKJ|/analyses/ENCAN091SKJ/} 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 {ENCFF025ITU|/files/ENCFF025ITU/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.745423. 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 {ENCFF025ITU|/files/ENCFF025ITU/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.83. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR189VFC | float |
ATAC-seq_ENCSR189VFC |
ATAC-seq ENCSR189VFC [biosample_summary="Homo sapiens HG02588"]
|
 |
[1.53, 43.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 50791508 | 1.58% | 93833 |
| chr1 | 4593355 | 1.85% | 8322 |
| chr2 | 4463250 | 1.84% | 8431 |
| chr3 | 3615899 | 1.82% | 6922 |
| chr4 | 2943891 | 1.55% | 5702 |
| chr5 | 3084125 | 1.70% | 5872 |
| chr6 | 3435957 | 2.01% | 6416 |
| chr7 | 2781119 | 1.75% | 5289 |
| chr8 | 2545716 | 1.75% | 4882 |
| chr9 | 1995275 | 1.44% | 3679 |
| chr10 | 2428306 | 1.81% | 4589 |
| chr11 | 2469870 | 1.83% | 4510 |
| chr12 | 2499802 | 1.88% | 4553 |
| chr13 | 1440010 | 1.26% | 2775 |
| chr14 | 1546245 | 1.44% | 2795 |
| chr15 | 1395211 | 1.37% | 2489 |
| chr16 | 1407711 | 1.56% | 2396 |
| chr17 | 1717185 | 2.06% | 2871 |
| chr18 | 1142543 | 1.42% | 2195 |
| chr19 | 1411766 | 2.41% | 2178 |
| chr20 | 1052936 | 1.63% | 1929 |
| chr21 | 508101 | 1.09% | 880 |
| chr22 | 672604 | 1.32% | 1088 |
| chrX | 1512657 | 0.97% | 2801 |
| chrY | 127974 | 0.22% | 269 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 93833 | 150 | 3123 | 541.3 | 449 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF561VYC.bed.gz | 3.56 MB | 787d4d4a5e71ec69eaec349d12715869 |
| ENCFF561VYC.tabix.bed.gz | 1.02 MB | d96c81d0df437cdc7d3c3aa817b41a91 |
| ENCFF561VYC.tabix.bed.gz.tbi | 427.03 KB | 80f294b78167aaa38458c0dcb0fcbac0 |
| genomic_resource.yaml | 2.49 KB | 7e6f3dd8c96b449fd279ca65e0dc8bc3 |
| statistics/ |