Bioinformatics Software Engineer Allovista • Remote (US) • Full-time or Senior Contract-to-Hire

About Allovista

Allovista is building a cloud-native platform that lets clinical labs run multimodal MRD (measurable residual disease) detection in-house — replacing expensive send-out workflows with same-day, on-premise bioinformatics. Our stack processes amplicon sequencing, RNA-seq, and mass spectrometry data through automated pipelines, delivering concordance-scored clinical reports directly to physicians.

We are pre-launch post-funding and are looking for our first technical hire to help ship the MVP and validate with early-adopter labs.

The Role

You'll work directly with the founder to build production bioinformatics pipelines and the React-based clinical interface. This is a high-ownership, generalist role — you'll touch everything from FASTQ processing to charting clonal frequency over time in D3.js.

What You'll Do

• Design and implement AWS Step Functions pipelines for BCR/TCR repertoire analysis, variant calling, and MRD quantification • Build and validate bioinformatics workflows: alignment, clonotype identification, clone tracking, limit-of-detection analysis • Write and maintain analytical validation scripts — compare pipeline outputs against orthogonal methods and published benchmarks • Develop React UI components for clinical reporting: clonal tracking dashboards, MRD trend charts, concordance visualizations • Collaborate on database schema (PostgreSQL Aurora) for HIPAA-compliant sample and result storage • Participate in early customer discovery — join calls with lab directors, translate feedback into features • Help define QC thresholds, LOD criteria, and reporting standards for LDT (laboratory-developed test) workflows

You Should Have

• 2+ years working with NGS bioinformatics (alignment, variant calling, or immune repertoire analysis) • Strong Python and/or R for data analysis and pipeline scripting • Hands-on experience with AWS services (Step Functions, Lambda, S3, Batch, or similar orchestration) • Proficiency in JavaScript/TypeScript and React (or willingness to ramp fast with strong JS fundamentals) • Familiarity with clinical sequencing data: FASTQ, BAM, VCF formats and QC metrics • Comfort working in a fast-moving, two-person team where you own entire features end-to-end

Bonus Points

• Experience with MRD detection, clonotype tracking, or immune repertoire profiling (ClonoSEQ, LymphoTrack, Adaptive, etc.) • Familiarity with D3.js or Recharts for data visualization • Background in clinical lab operations, LDT development, or CAP/CLIA compliance • Exposure to mass spectrometry proteomics or multi-omics integration • Contributions to open-source bioinformatics tools (Nextflow, nf-core, BioPython, etc.)

Compensation

• Salary: $80,000 – $145,000 (commensurate with experience) • Equity: Meaningful founding-team equity stake (details shared during interviews) • Benefits: Remote-first, flexible hours, conference budget, equipment stipend • This can start as a senior contract engagement ($55–$85/hr, 20-35 hrs/wk) converting to full-time after mutual fit is confirmed

How to Apply

Email team@allovista.co with:

1. Your resume or LinkedIn
2. A brief note on which part of this role excites you most
3. (Optional) A link to code you're proud of — GitHub, a publication with a methods repo, a pipeline you built

No cover letter needed. We review every application personally.