PRJNA854613

BioProject first seen 2023

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

100/100 · A

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

What this means

claude:haiku

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) amplicon survey from an Illumina NovaSeq 6000 with 735 million short reads at 95% Q30. The massive depth enables sensitive detection of viral variants and minority quasispecies in clinical samples.

Data type / assay

amplicon

Organism

Severe acute respiratory syndrome coronavirus 2

Instrument

Illumina NovaSeq 6000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

536 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 222100032442 reported

total reads 735430571 reported

n content pct 0.001 measured

pct q20 bases 98.3 measured

pct q30 bases 94.6 measured

gc content pct 40 measured

mean read length 151 measured

mean base quality 36.1 measured

adapter content pct 0 measured

duplication rate pct 98.29 measured

How this grade was computed

Weighted mean of 2 scored metric(s) → 100/100

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

pct q30 bases 94.6 measured ×1 100%

adapter content pct 0 measured ×0.5 100%

QC cost 35 s compute

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