Corpus 1,277 assessed · 1,178 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74/100
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PRJNA306142

BioProject first seen 2019

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

46/100 · F

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

What this means
claude:haiku

Short-read WGS of a protist with failing grade; the primary constraint is pct_q30_bases (66.7%, measured), falling short of the 80%+ threshold typical for reliable variant calling. The 9.3% duplication rate is concerning for downstream SNV detection. Full measured evidence (strength=1) confirms this is a genuine quality limitation, not provisional.

Data type / assay
WGS
Organism
Amoebophrya sp. AT5.2
Instrument
454 GS Junior
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
4 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 61694259588 reported
total reads 308152800 reported
n content pct 0.035 measured
pct q20 bases 88 measured
pct q30 bases 66.7 measured
gc content pct 50.6 measured
mean read length 299.5 measured
mean base quality 32.5 measured
adapter content pct 0 measured
duplication rate pct 9.3 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 46/100

The F 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 66.7 measured ×1 0%
duplication rate pct 9.3 measured ×0.5 96%
adapter content pct 0 measured ×0.4 100%
QC cost 5 s compute

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