SeqDesk · Blog

Notes & data stories

Original analysis on sequencing metadata, standards, and the infrastructure that makes sequence data reusable.

The SeqDesk pipeline roadmapRoadmap
5 parts
1 / 19 do all three
Jun 30, 2026 · Interactive

Tools (of 19 compared) natively offering each facility domain: pipelines (8), order intake (5), ENA submission (4) — and all three at once (1). SeqDesk ships 7 pipelines today: 1 available, 3 beta, 3 planned.

How SeqDesk fits togetherArchitecture
4 parts
7 tools, one app
Jun 30, 2026 · Interactive

Outside systems the self-hosted SeqDesk app talks to directly: storage & auth (2), analysis & sequencing (3), archiving to ENA (2).

Comparing tools for sequencing facilitiesLandscape
4 parts
1 / 19 do all three
Jun 30, 2026 · Interactive

Tools (of 19 compared) natively offering each domain capability: pipelines (8), order intake (5), ENA submission (4) — and all three at once (1).

How pipelines run inside SeqDeskPipeline integration
4 parts
0 fields you fill in
Jun 30, 2026 · Interactive

Who fills a MAG run: 5 samplesheet columns resolved from the sample's own records, 2 reference-DB params set once by the facility, 0 typed by the researcher.

Up the wire: how SeqDesk carries a metagenome to ENAENA submission
6 parts
35 lines submg writes
Jun 30, 2026 · Interactive

Lines of one sample's submg YAML by provenance: SeqDesk scaffolding (35), your MIxS answers (8), then the 6 accessions ENA mints back. Illustrative: one read set, with bins.

Who makes sequencing data FAIR?Infrastructure
5 parts
74% peak · 2022, then fell
Jun 29, 2026 · Interactive

Share of public ENA samples with a real collection date, by submission year (2008–2025).

The MIxS icebergMetadata
3 parts
60% of 880 fields
Jun 3, 2026 · Interactive

Fields by how many of the 29 ENA/GSC checklists use them (log scale).