PRJNA296751

BioProject first seen 2020

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

63/100 · D

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

What this means

claude:haiku

WGS (Lactiplantibacillus plantarum) with significant quality issues (63/100, grade D). Adapter content of 26.82% (scoring zero) indicates severely incomplete trimming, and Q30 of 84.3% (scoring 72/100) is borderline for variant accuracy. Data is high-risk as-is; mandatory aggressive re-trimming and validation before reuse.

Data type / assay

WGS

Organism

Lactiplantibacillus plantarum

Instrument

NextSeq 500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 848452692 reported

total reads 2809446 reported

n content pct 0.001 measured

pct q20 bases 93.5 measured

pct q30 bases 84.3 measured

gc content pct 44.8 measured

mean read length 151 measured

mean base quality 32.8 measured

adapter content pct 26.82 measured

duplication rate pct 9.5 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 63/100

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 84.3 measured ×1 72%

duplication rate pct 9.5 measured ×0.5 95%

adapter content pct 26.82 measured ×0.4 0%

QC cost 14 s compute

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