Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJNA169880

BioProject first seen 2022

Provenance — who produced it, who reused it

Linked to 1 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

64/100 · D

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

What this means
claude:haiku

Ovis aries hybrid WGS with poor measured quality (D grade). Q30 at 77.8% is below acceptable thresholds for SNP/indel discovery, likely driven by the 454 component (mean length 342.9 bp). Duplication is moderate (12.39%), but Q30 shortfall undermines variant sensitivity. Recommend selective reuse for assembly only, or resequencing.

Data type / assay
WGS
Organism
Ovis aries
Instrument
454 GS FLX Titanium
Platform
ILLUMINA
Read type
hybrid (short+long)
Files available
FASTQ (raw reads)
N numbers (samples, groups)
171 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 386605538892 reported
total reads 1452757349 reported
n content pct 0.013 measured
pct q20 bases 91.8 measured
pct q30 bases 77.8 measured
gc content pct 39.6 measured
mean read length 342.9 measured
mean base quality 34.5 measured
adapter content pct 0 measured
duplication rate pct 12.39 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 64/100

The D grade is a transparent weighted average. Each metric below scored from 0–100% against the published WGS thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 77.8 measured ×1 39%
duplication rate pct 12.39 measured ×0.5 86%
adapter content pct 0 measured ×0.4 100%
QC cost 34 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0