Bioinformatics/DevOps Engineer — Cloud Genotyping Pipeline (AWS/GCP)

Posted 7 hours ago

Worldwide

Summary

We're an agricultural biotech lab migrating a targeted-genotyping workflow (DNBSEQ-G99 sequencer, amplicon SNP panels) to the cloud and need a bioinformatics/DevOps freelancer to set us up on Google Cloud or AWS — whichever you can show is more cost-effective for this workload. Experience in agri-genomics or plant genomics is preferred. The job: stand up a cloud instance where sequencing data uploads automatically after a run, we log in from Windows (plug-and-play preferred, no command line), and the pipeline produces our four standard output files — a genotype matrix, per-marker call-rate table, per-sample call-rate table, and a run QC report — matching the example files provided, plus top/topbottom genotype-call exports as CSV. Acceptance is straightforward: we'll give you one existing plate with known results, and your pipeline's output must match it. You should be comfortable with FASTQ→BAM→VCF workflows (bwa-mem2/samtools/bcftools), amplicon primer trimming, IAM/secure access, S3 or Cloud Storage, and cost-aware instance sizing (overnight runtime is fine). Detailed spec available on request. Please share relevant genotyping/cloud experience and a rough estimate.

  • Less than 30 hrs/week
    Hourly
  • 1-3 months
    Duration
  • Intermediate
    Experience Level
  • $20.00

    -

    $45.00

    Hourly
  • Remote Job
  • One-time project
    Project Type
Skills and Expertise
Mandatory skills
Agriculture & Forestry
Activity on this job
  • Proposals:20 to 50
  • Last viewed by client:7 hours ago
  • Interviewing:
    1
  • Invites sent:
    2
  • Unanswered invites:
    1
About the client
Member since Mar 16, 2025
  • USA
    Monterey2:25 PM
  • $1.2K total spent
    1 hire, 0 active

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