Website:
ivueverse.com
Job details:
Bioinformatics Engineer – Immune Repertoire & Transcriptomics
Job Summary
We are seeking experienced Bioinformatics Engineers with strong expertise in Immune Repertoire and Transcriptomics data processing to build and deploy scalable cloud-native bioinformatics workflows. The role involves developing production-grade pipelines for TCR/BCR sequencing, single-cell RNA-seq, and Bulk RNA-seq datasets, along with downstream analytics and multi-omics integration.
Key Responsibilities
- Design, develop, and deploy scalable bioinformatics pipelines for:
- TCR/BCR sequencing data
- Single-cell RNA-seq (scRNA-seq)
- Bulk RNA-seq workflows
- Process sequencing datasets from platforms such as 10x Genomics, SMART-seq, Adaptive, and iRepertoire.
- Build workflows for QC, alignment, pseudo-alignment, normalization, clustering, differential expression, clonotype analysis, diversity metrics, antigen/epitope matching, and pathway enrichment.
- Develop production-grade, containerized workflows using Docker/Singularity and workflow orchestration tools such as Nextflow, Snakemake, or WDL/Cromwell.
- Deploy and manage bioinformatics workflows in cloud environments, preferably GCP.
- Implement CI/CD pipelines using GitHub Actions, GitLab CI, or similar tools.
- Integrate transcriptomics, immune repertoire, and metadata-driven datasets into downstream analytics and enterprise data platforms.
- Generate standardized analysis-ready outputs, QC dashboards, reports, and reproducible scientific workflows.
- Collaborate with scientific, data engineering, and DevOps teams to translate biological requirements into scalable engineering solutions.
- Produce technical documentation, pipeline documentation, and conduct demos/workshops when required.
Required Skills
- Strong hands-on experience with:
- TCR/BCR-seq
- scRNA-seq
- Bulk RNA-seq workflows
- Expertise in tools/frameworks such as:
- Cell Ranger, MiXCR, IgBlast, TRUST4, Immcantation
- Seurat, Scanpy, scRepertoire, Immunarch
- STAR, HISAT2, Salmon, Kallisto
- DESeq2, edgeR, limma
- Strong programming skills in Python and/or R.
- Experience with Docker, CI/CD, cloud-native pipeline development, and workflow automation tools.
- Hands-on experience with GCP services and large-scale sequencing data processing.
- Familiarity with SQL and multi-omics data integration workflows.
Preferred Skills
- Experience with Terraform or Infrastructure as Code.
- Exposure to enterprise-scale genomics platforms and workflow orchestration systems.
- Strong communication and stakeholder management skills.
Experience
4+ Years
Work Mode
Remote
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