PRJNA303892

BioProject first seen 2018

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

55/100 · F

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

What this means

claude:haiku

WGA dataset with near-complete duplicate saturation (79.51%, measured) and substandard base accuracy (Q30: 82.9%, measured), unsuitable for variant discovery. WGA amplification bias is extreme; reuse not recommended.

Data type / assay

WGS

Organism

Aegiceras corniculatum

Instrument

Illumina Genome Analyzer II

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

25 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 25288331138 reported

total reads 148447243 reported

n content pct 0.001 measured

pct q20 bases 92.2 measured

pct q30 bases 82.9 measured

gc content pct 40.3 measured

mean read length 90 measured

mean base quality 32.8 measured

adapter content pct 0 measured

duplication rate pct 79.51 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 55/100

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 82.9 measured ×1 65%

duplication rate pct 79.51 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 16 s compute

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