Resource
| Id | ATAC-seq/ENCSR383RDZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR383RDZ [biosample_summary="Homo sapiens GM19328"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN485ATM|/analyses/ENCAN485ATM/} 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 {ENCFF413LGS|/files/ENCFF413LGS/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.810034. 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 {ENCFF413LGS|/files/ENCFF413LGS/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.85. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR383RDZ | float |
ATAC-seq_ENCSR383RDZ |
ATAC-seq ENCSR383RDZ [biosample_summary="Homo sapiens GM19328"]
|
 |
[1.64, 34.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 42173936 | 1.31% | 78543 |
| chr1 | 3676325 | 1.48% | 6737 |
| chr2 | 3656218 | 1.51% | 6946 |
| chr3 | 2994749 | 1.51% | 5747 |
| chr4 | 2448628 | 1.29% | 4730 |
| chr5 | 2621953 | 1.44% | 5030 |
| chr6 | 2889436 | 1.69% | 5466 |
| chr7 | 2380432 | 1.49% | 4476 |
| chr8 | 2169440 | 1.49% | 4159 |
| chr9 | 1649013 | 1.19% | 3061 |
| chr10 | 2020083 | 1.51% | 3799 |
| chr11 | 2011235 | 1.49% | 3732 |
| chr12 | 2112019 | 1.58% | 3892 |
| chr13 | 1192398 | 1.04% | 2264 |
| chr14 | 1310031 | 1.22% | 2386 |
| chr15 | 1126378 | 1.10% | 2074 |
| chr16 | 1151493 | 1.27% | 1970 |
| chr17 | 1360917 | 1.63% | 2325 |
| chr18 | 992229 | 1.23% | 1942 |
| chr19 | 1119403 | 1.91% | 1766 |
| chr20 | 884901 | 1.37% | 1648 |
| chr21 | 400182 | 0.86% | 705 |
| chr22 | 507121 | 1.00% | 853 |
| chrX | 1498989 | 0.96% | 2834 |
| chrY | 363 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 78543 | 150 | 2833 | 536.95 | 454 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF683FRF.bed.gz | 2.98 MB | eab2139d16226affaa2ce2b7cdd201c9 |
| ENCFF683FRF.tabix.bed.gz | 880.4 KB | ef1eb8288feb938650883fd50b798ee3 |
| ENCFF683FRF.tabix.bed.gz.tbi | 385.74 KB | 839805a479540ae33d5ea12a0f0848e2 |
| genomic_resource.yaml | 2.49 KB | 8377e4e608f3bfd5645a0a9dfb7ef2e2 |
| statistics/ |