Required : • 6 to 8 years of experience in bioinformatics workflow engineering or computational biology • Strong experience with Nextflow, nf-core, WDL, CWL, Snakemake, or similar workflow ...
Required : • 6 to 8 years of experience in bioinformatics workflow engineering or computational biology • Strong experience with Nextflow, nf-core, WDL, CWL, Snakemake, or similar workflow ...
Bioinformatics Engineer, Pipelines
San Francisco, CA · On-site
$150K - $200K/yr
You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and QC layers, and collaborate with the Tabular Data Team and Knowledge Curation Team to ensure ...
Bioinformatics Engineer, Pipelines
San Francisco, CA · On-site
$150K - $200K/yr
You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and QC layers, and collaborate with the Tabular Data Team and Knowledge Curation Team to ensure ...
Bioinformatics Workflow Developer
South San Francisco, CA · On-site
$40 - $45/hr
Develop, maintain, and productionize bioinformatics workflows using Nextflow, WDL, CWL, or Snakemake. * Analyze bulk and single-cell transcriptomic and epigenetic datasets, including RNA-seq, GWAS ...
Bioinformatics Workflow Developer
South San Francisco, CA · On-site
$40 - $45/hr
Develop, maintain, and productionize bioinformatics workflows using Nextflow, WDL, CWL, or Snakemake. * Analyze bulk and single-cell transcriptomic and epigenetic datasets, including RNA-seq, GWAS ...
Bioinformatics Engineer, Pipelines
San Francisco, CA · On-site
$150K - $200K/yr
You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and QC layers, and collaborate with the Tabular Data Team and Knowledge Curation Team to ensure ...
Quick apply
Bioinformatics Engineer, Pipelines
San Francisco, CA · On-site
$150K - $200K/yr
You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and QC layers, and collaborate with the Tabular Data Team and Knowledge Curation Team to ensure ...
Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products. * Leverage Oxford Nanopore Technologies (ONT), Illumina ...
Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products. * Leverage Oxford Nanopore Technologies (ONT), Illumina ...
Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products. * Leverage Oxford Nanopore Technologies (ONT), Illumina ...
Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products. * Leverage Oxford Nanopore Technologies (ONT), Illumina ...
NGS Pipeline Development & Data Science Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products Leverage Oxford ...
NGS Pipeline Development & Data Science Build and maintain NGS analysis pipelines (e.g., Nextflow) to support quality control and performance tracking of synthetic biology products Leverage Oxford ...
Bioinformatics Scientist
Hayward, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Bioinformatics Scientist
Hayward, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Data Infrastructure Engineer
Berkeley, CA · On-site
$131K - $172K/yr
Own and extend end-to-end Nextflow pipelines on AWS (Seqera Platform) that process nanopore sequencing output: basecalling (Dorado), amino acid calling, signal alignment, and ML-based amino acid ...
Data Infrastructure Engineer
Berkeley, CA · On-site
$131K - $172K/yr
Own and extend end-to-end Nextflow pipelines on AWS (Seqera Platform) that process nanopore sequencing output: basecalling (Dorado), amino acid calling, signal alignment, and ML-based amino acid ...
Bioinformatics Scientist
San Mateo, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Bioinformatics Scientist
San Mateo, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Own and extend end-to-end Nextflow pipelines on AWS (Seqera Platform) that process nanopore sequencing output: basecalling (Dorado), amino acid calling, signal alignment, and ML-based amino acid ...
Own and extend end-to-end Nextflow pipelines on AWS (Seqera Platform) that process nanopore sequencing output: basecalling (Dorado), amino acid calling, signal alignment, and ML-based amino acid ...
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Bioinformatics Scientist
Alameda, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
Bioinformatics Scientist
Alameda, CA · On-site
Production experience with Nextflow or Snakemake, including cloud deployments * Strong Python (numpy, pandas, biopython, Jupyter) and solid Linux/Git fundamentals * Bonus: a track record of ...
DevOps Engineer
Pleasanton, CA · On-site
$58.50 - $80.25/hr
Knowledge of Nextflow or other workflow framework * Experience with configuration management tools, such as Ansible or Puppet or Bright * Strong understanding of user interfaces and user experience ...
DevOps Engineer
Pleasanton, CA · On-site
$58.50 - $80.25/hr
Knowledge of Nextflow or other workflow framework * Experience with configuration management tools, such as Ansible or Puppet or Bright * Strong understanding of user interfaces and user experience ...
Computational Scientist (Functional Genomics) - Remote
South San Francisco, CA · On-site +1
$35 - $40/hr
Knowledge of workflow management tools such as Nextflow or Snakemake is preferred. * Strong software engineering fundamentals and experience with version control. * Excellent analytical, problem ...
Computational Scientist (Functional Genomics) - Remote
South San Francisco, CA · On-site +1
$35 - $40/hr
Knowledge of workflow management tools such as Nextflow or Snakemake is preferred. * Strong software engineering fundamentals and experience with version control. * Excellent analytical, problem ...
Practical experience with workflow orchestration (Nextflow, Snakemake, or similar). Solid software engineering habits - reproducible analysis, version control, peer review, and testing. Comfort ...
Practical experience with workflow orchestration (Nextflow, Snakemake, or similar). Solid software engineering habits - reproducible analysis, version control, peer review, and testing. Comfort ...
... Nextflow, Snakemake, or similar workflow managers • Docker experience • Familiarity with LLMs or AI/ML tools • Experience across multiple biomedical domains • Startup or biotech/pharma ...
... Nextflow, Snakemake, or similar workflow managers • Docker experience • Familiarity with LLMs or AI/ML tools • Experience across multiple biomedical domains • Startup or biotech/pharma ...
Principal Software Engineer
South San Francisco, CA · Remote
$162K - $217K/yr
AWS, Kubernetes, Python, Go, Groovy, Terraform, Helm, Nextflow, WDL, Django, React. How You Work * Product-Minded: You think in terms of business and user problems, not tickets. You ask "should we ...
Principal Software Engineer
South San Francisco, CA · Remote
$162K - $217K/yr
AWS, Kubernetes, Python, Go, Groovy, Terraform, Helm, Nextflow, WDL, Django, React. How You Work * Product-Minded: You think in terms of business and user problems, not tickets. You ask "should we ...
Principal Software Engineer
South San Francisco, CA · On-site
$162K - $217K/yr
AWS, Kubernetes, Python, Go, Groovy, Terraform, Helm, Nextflow, WDL, Django, React. How You Work * Product-Minded: You think in terms of business and user problems, not tickets. You ask "should we ...
Principal Software Engineer
South San Francisco, CA · On-site
$162K - $217K/yr
AWS, Kubernetes, Python, Go, Groovy, Terraform, Helm, Nextflow, WDL, Django, React. How You Work * Product-Minded: You think in terms of business and user problems, not tickets. You ask "should we ...
Computational Scientist II - Single Cell Genomics
South San Francisco, CA · On-site
$73.87 - $105.21/hr
Experience using workflow management systems such as Nextflow or Snakemake . * Experience working on High Performance Computing (HPC) environments using SLURM . * Familiarity with cloud computing ...
Computational Scientist II - Single Cell Genomics
South San Francisco, CA · On-site
$73.87 - $105.21/hr
Experience using workflow management systems such as Nextflow or Snakemake . * Experience working on High Performance Computing (HPC) environments using SLURM . * Familiarity with cloud computing ...
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Bioinformatics Engineer, Pipelines
San Francisco, CA • On-site
Mithrl
Full-time
Re-posted 28 days ago
Job description
Job Summary:
Mithrl is building the world’s first commercially available AI Co-Scientist, transforming messy biological data into real insights. The Lead Bioinformatics Pipeline Engineer will design and maintain production-grade bioinformatics pipelines, ensuring accurate data-backed answers for scientists.
Responsibilities:
• Design and maintain production grade bioinformatics pipelines for a wide range of data modalities, including microarray, cell painting, WGS and WES, spatial transcriptomics, flow cytometry, ATAC-seq, and methyl-seq
• Build workflows using Nextflow, nf-core modules, or similar engines with a focus on reproducibility, validation, and scalability
• Implement quality control, validation, and provenance tracking for all supported modalities
• Collaborate with the Tabular Data Team to ensure pipeline outputs map cleanly into Mithrl’s internal schemas, including variable ID coercions, metadata normalization, and feature name harmonization
• Work with the Knowledge Curation Team to align outputs with reference genomes, annotations, and biological ontologies
• Produce structured output artifacts so users can download processed data and supporting metadata directly through the platform
Qualifications:
Required:
• 6 to 8 years of experience in bioinformatics workflow engineering or computational biology
• Strong experience with Nextflow, nf-core, WDL, CWL, Snakemake, or similar workflow systems
• Proficiency in Python or R for data processing, QC, and pipeline logic
• Hands-on experience building pipelines for multiple biological data types, including genomics, single cell, imaging, flow cytometry, spatial data, or epigenomics
• Ability to design pipelines that are reproducible and containerized using Docker or Singularity
• Strong understanding of secondary and tertiary data layers and how they integrate with downstream analysis systems
• Experience integrating pipeline outputs with data stores, schemas, or ML-ready formats
Preferred:
• Experience executing pipelines in cloud environments such as AWS Batch, ECS, Tower, or Nextflow Cloud
• Experience with imaging workflows such as CellProfiler, DeepCell, or Squidpy
• Familiarity with genomic reference databases, annotation formats, and biological ontologies
• Previous work in a tech bio startup, biotech R&D group, or scientific software company
Company:
Mithrl is a software development company that builds the custom workflows for NGS data on-demand. Founded in 2023, the company is headquartered in San Francisco, USA, with a team of 51-200 employees. The company is currently Early Stage.
Mithrl is building the world’s first commercially available AI Co-Scientist, transforming messy biological data into real insights. The Lead Bioinformatics Pipeline Engineer will design and maintain production-grade bioinformatics pipelines, ensuring accurate data-backed answers for scientists.
Responsibilities:
• Design and maintain production grade bioinformatics pipelines for a wide range of data modalities, including microarray, cell painting, WGS and WES, spatial transcriptomics, flow cytometry, ATAC-seq, and methyl-seq
• Build workflows using Nextflow, nf-core modules, or similar engines with a focus on reproducibility, validation, and scalability
• Implement quality control, validation, and provenance tracking for all supported modalities
• Collaborate with the Tabular Data Team to ensure pipeline outputs map cleanly into Mithrl’s internal schemas, including variable ID coercions, metadata normalization, and feature name harmonization
• Work with the Knowledge Curation Team to align outputs with reference genomes, annotations, and biological ontologies
• Produce structured output artifacts so users can download processed data and supporting metadata directly through the platform
Qualifications:
Required:
• 6 to 8 years of experience in bioinformatics workflow engineering or computational biology
• Strong experience with Nextflow, nf-core, WDL, CWL, Snakemake, or similar workflow systems
• Proficiency in Python or R for data processing, QC, and pipeline logic
• Hands-on experience building pipelines for multiple biological data types, including genomics, single cell, imaging, flow cytometry, spatial data, or epigenomics
• Ability to design pipelines that are reproducible and containerized using Docker or Singularity
• Strong understanding of secondary and tertiary data layers and how they integrate with downstream analysis systems
• Experience integrating pipeline outputs with data stores, schemas, or ML-ready formats
Preferred:
• Experience executing pipelines in cloud environments such as AWS Batch, ECS, Tower, or Nextflow Cloud
• Experience with imaging workflows such as CellProfiler, DeepCell, or Squidpy
• Familiarity with genomic reference databases, annotation formats, and biological ontologies
• Previous work in a tech bio startup, biotech R&D group, or scientific software company
Company:
Mithrl is a software development company that builds the custom workflows for NGS data on-demand. Founded in 2023, the company is headquartered in San Francisco, USA, with a team of 51-200 employees. The company is currently Early Stage.