PRJEB9683

BioProject first seen 2016

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

68/100 · D

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

What this means

claude:haiku

Illumina HiSeq 2500 large-insert library sequencing (CLONE protocol) of Primula vulgaris delivers 433.7 billion bases at 94.2% Q20. Clone-based shotgun sequencing suits complex plant genome assembly, particularly for targeting difficult repetitive regions or creating tiling libraries.

Data type / assay

WGS

Organism

Primula vulgaris

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

24 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 433701183174 reported

total reads 2071979687 reported

n content pct 0.055 measured

pct q20 bases 94.2 measured

pct q30 bases 90.3 measured

gc content pct 47.8 measured

mean read length 151 measured

mean base quality 35.1 measured

adapter content pct 4.72 measured

duplication rate pct 70.09 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 68/100

The D 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 90.3 measured ×1 100%

duplication rate pct 70.09 measured ×0.5 0%

adapter content pct 4.72 measured ×0.4 73%

QC cost 24 s compute

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