We're hiring a Bioinformatics Data Engineer to own sequencing data processing and omics data modeling on AWS for a regulated biotech data platform engagement. This role combines real bioinformatics/genomics experience with production pipeline engineering - not a research/analysis-only position.

Contract-to-hire | Remote (Canada)

What you'll own:

- FASTQ/sequencing pipeline processing on our infrastructure (Nextflow)
- The landing zone for externally processed omics data
- The data model for downstream Translational research use

Must-haves:

- Hands-on experience building and running production sequencing pipelines - Nextflow strongly preferred (Snakemake, WDL, or CWL acceptable)
- Practical experience with alignment and quantification workflows
- Familiarity with single-cell data formats (h5ad/AnnData)
- Solid AWS skills (S3, Batch or equivalent)



- enough to run and maintain pipelines, deep infrastructure/architecture experience not required
- Python and/or R, comfortable with Docker

Nice-to-haves:

- Familiarity with genomics file formats/tooling (BAM, VCF, SAMtools/BCFtools, GATK)
- Experience with additional omics modalities (proteomics, spatial transcriptomics)
- Knowledge of reference genome builds/versioning (e.g., GRCh38)
- Experience with single-cell analysis tooling (Seurat, Scanpy)
- Exposure to a regulated/validated computing workplace
- Familiarity with AI-assisted development workflows

- 5+ years combining bioinformatics/genomics work with production pipeline engineering. Apply to learn more about the engagement.

📌 Bioinformatics Data Engineer (Canada)
🏢 Acon InfoPlus
📍 Canada