Sequencing facility management

Modern platform for managing orders, tracking samples, running pipelines, and submitting to ENA.

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Order management

Track sequencing orders from submission to delivery with real-time status updates.

SequencingQC Pending
  • ORD-2024-0142 · 48 samples
  • ORD-2024-0141 · 96 samples
  • ORD-2024-0140 · 24 samples

Sample tracking

MIxS-compliant metadata with AI-powered validation and auto-completion.

Sample IDOrganismStatus
SAMP-001E. coli✓ Valid
SAMP-002S. aureus✓ Valid

Pipeline integration

Run nf-core pipelines with real-time progress and automatic resource allocation.

$ seqdesk run nf-core/rnaseq
► Running pipeline...
✓ FASTQC completed
○ STAR_ALIGN running

ENA submission

Submit directly to the European Nucleotide Archive with automated validation.

Uploading to ENA...
  • ✓ Study: PRJEB12345
  • ✓ Samples validated
  • ○ Uploading reads...

Automated reports

Generate QC reports and delivery summaries with one click.

Report QC-2024-0142.pdf
─────────────────
Total reads: 42.5M
Q30: 94.2%
Duplication: 12.1%

Multi-user access

Role-based permissions for facility staff, PIs, and researchers.

  • 👤 Admin · Full access
  • 👤 Operator · Run pipelines
  • 👤 PI · View & approve
  • 👤 Researcher · Submit only

Get started in seconds

Self-hosted, no external dependencies required.

curl -fsSL https://seqdesk.com/install.sh | bash

Works on Linux, macOS, and Docker