Resource
| Id | ATAC-seq/ENCSR315QWI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR315QWI [biosample_summary="Homo sapiens GM21737"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN983NFZ|/analyses/ENCAN983NFZ/} 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 {ENCFF687END|/files/ENCFF687END/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.880654. 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 {ENCFF687END|/files/ENCFF687END/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR315QWI | float |
ATAC-seq_ENCSR315QWI |
ATAC-seq ENCSR315QWI [biosample_summary="Homo sapiens GM21737"]
|
 |
[1.46, 37] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 46469421 | 1.44% | 86143 |
| chr1 | 4211709 | 1.69% | 7648 |
| chr2 | 3903503 | 1.61% | 7444 |
| chr3 | 3137390 | 1.58% | 6018 |
| chr4 | 2466958 | 1.30% | 4793 |
| chr5 | 2683122 | 1.48% | 5151 |
| chr6 | 3083643 | 1.81% | 5769 |
| chr7 | 2488203 | 1.56% | 4722 |
| chr8 | 2209938 | 1.52% | 4236 |
| chr9 | 1884297 | 1.36% | 3528 |
| chr10 | 2257092 | 1.69% | 4245 |
| chr11 | 2266824 | 1.68% | 4205 |
| chr12 | 2320045 | 1.74% | 4238 |
| chr13 | 1231820 | 1.08% | 2369 |
| chr14 | 1467984 | 1.37% | 2681 |
| chr15 | 1399599 | 1.37% | 2551 |
| chr16 | 1448340 | 1.60% | 2493 |
| chr17 | 1807214 | 2.17% | 3119 |
| chr18 | 1033169 | 1.29% | 2004 |
| chr19 | 1522571 | 2.60% | 2367 |
| chr20 | 1035504 | 1.61% | 1905 |
| chr21 | 480273 | 1.03% | 838 |
| chr22 | 716930 | 1.41% | 1220 |
| chrX | 1319009 | 0.85% | 2408 |
| chrY | 94284 | 0.16% | 191 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 86143 | 150 | 2764 | 539.45 | 442 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF529WCI.bed.gz | 3.32 MB | 6b4cbd38b8e35db7e1a1c088cb9bbcfd |
| ENCFF529WCI.tabix.bed.gz | 971.45 KB | cdf6975143a3b5b5221040ff83adf9f1 |
| ENCFF529WCI.tabix.bed.gz.tbi | 392.29 KB | 2103a6fbe194a2950bc0b99bbd4db2cc |
| genomic_resource.yaml | 2.49 KB | 2f9c9593f9794f70e73e85f5f9686b3d |
| statistics/ |