Resource
| Id | ATAC-seq/ENCSR305XRF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR305XRF [biosample_summary="Homo sapiens HG03175"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN790UCY|/analyses/ENCAN790UCY/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN790UCY|/analyses/ENCAN790UCY/} has in progress subobject document {fa63ac9e-3020-4401-989c-a412e2e542c8|/documents/fa63ac9e-3020-4401-989c-a412e2e542c8/} 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 {ENCFF963YZH|/files/ENCFF963YZH/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.829492. 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 {ENCFF963YZH|/files/ENCFF963YZH/} 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_ENCSR305XRF | float |
ATAC-seq_ENCSR305XRF |
ATAC-seq ENCSR305XRF [biosample_summary="Homo sapiens HG03175"]
|
 |
[1.49, 30.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 57018320 | 1.77% | 111240 |
| chr1 | 5152438 | 2.07% | 9987 |
| chr2 | 5035157 | 2.08% | 10085 |
| chr3 | 4059458 | 2.05% | 8170 |
| chr4 | 3490095 | 1.83% | 7224 |
| chr5 | 3518897 | 1.94% | 7010 |
| chr6 | 3896151 | 2.28% | 7664 |
| chr7 | 3173766 | 1.99% | 6282 |
| chr8 | 2925957 | 2.02% | 5898 |
| chr9 | 2274409 | 1.64% | 4421 |
| chr10 | 2764203 | 2.07% | 5377 |
| chr11 | 2739152 | 2.03% | 5271 |
| chr12 | 2822847 | 2.12% | 5469 |
| chr13 | 1614738 | 1.41% | 3270 |
| chr14 | 1705075 | 1.59% | 3206 |
| chr15 | 1560611 | 1.53% | 2945 |
| chr16 | 1535972 | 1.70% | 2742 |
| chr17 | 1846967 | 2.22% | 3329 |
| chr18 | 1305512 | 1.62% | 2625 |
| chr19 | 1426021 | 2.43% | 2320 |
| chr20 | 1182962 | 1.84% | 2283 |
| chr21 | 504626 | 1.08% | 942 |
| chr22 | 663712 | 1.31% | 1150 |
| chrX | 1715585 | 1.10% | 3347 |
| chrY | 104009 | 0.18% | 223 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 111240 | 150 | 2883 | 512.57 | 414 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF914TAP.bed.gz | 4.24 MB | b85b9909528983647c2ee324e788686e |
| ENCFF914TAP.tabix.bed.gz | 1.21 MB | 3597269a46e1ea6f683da67a37ba05ba |
| ENCFF914TAP.tabix.bed.gz.tbi | 476.3 KB | 348de1159c453442a4d770033e24478b |
| genomic_resource.yaml | 2.71 KB | db8945c61d026c0d4ec0659bc6814800 |
| statistics/ |