PRJEB2999

BioProject first seen 2020

Provenance — who produced it, who reused it

Linked to 3 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

3 further papers cite this accession but reuse could not be confirmed.

Deep data QC

98/100 · A

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

Data type / assay

WGS

Organism

Neisseria gonorrhoeae

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

196 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 91904395400 reported

total reads 459521977 reported

n content pct 0.013 measured

pct q20 bases 97.4 measured

pct q30 bases 91.1 measured

gc content pct 51.8 measured

mean read length 100 measured

mean base quality 35.2 measured

adapter content pct 0.01 measured

duplication rate pct 10.44 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 98/100

The A 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 91.1 measured ×1 100%

duplication rate pct 10.44 measured ×0.5 92%

adapter content pct 0.01 measured ×0.4 100%

QC cost 20 s compute

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