Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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SRR4279980

SRA

Provenance — who produced it, who reused it

Linked to 0 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.

No linked papers found in the corpus yet.

Deep data QC

87/100 · B

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

What this means
claude:haiku

Bos indicus whole-genome sequencing on HiSeq 2000 with 103 million 99.5 bp reads at 95.8% Q20 and 84.9% Q30 across 20.6 Gb provides moderate coverage for SNP discovery. The 38.9% GC and reasonable quality support variant calling in livestock populations; suitable for examining breed-specific genetic signatures or allelic diversity in zebu cattle.

Data type / assay
WGS
Organism
Bos indicus
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 20634309762 reported
total reads 103722071 reported
n content pct 0.105 measured
pct q20 bases 95.8 measured
pct q30 bases 84.9 measured
gc content pct 38.9 measured
mean read length 99.5 measured
mean base quality 33.6 measured
adapter content pct 0 measured
duplication rate pct 1.67 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 87/100

The B 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 84.9 measured ×1 75%
duplication rate pct 1.67 measured ×0.5 100%
adapter content pct 0 measured ×0.4 100%
QC cost 6 s compute

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

Scientific quality

Based on hands-on reproduction of the papers that use this dataset. A reproducible paper that stands on this data is positive evidence; a flagged one is a prompt to look closer — never a verdict on the dataset itself without the evidence.

1 studies use it 1 reproduced mean score 86