• Developing methods to analyze high-throughput DNA sequencing data
• Producing high-quality written documentation (study plans and reports, etc.)
• Work with different groups to design experiments and implement data analysis
• Leverage knowledge of genomics and NGS analyses to work on projects and other groups
• Develop algorithms for base calling, quality scoring, sequence alignment, variant detection, consensus sequencing
• Genome assembly develops bioinformatics pipelines for sequencing and sequence analysis
• Create summary presentation materials for use in company presentations, publications, and patent filings
• Guide the development, optimization and scaling up of bioinformatics pipelines
• Prototype, test and validate novel ideas, technologies, tools and algorithms to deliver significant scientific value
• Work with experimental scientists to independently design sequencing experiments, analyze results, and communicate conclusions to the internal R&D teams.

Skills: Bioinformatics Analysis, Technical Writing, Collaboration, Genomics, Pipeline Development, Presentation, Innovation, Experimental Design

• Port, deploy and maintain analysis pipelines written in Python/Bash/CWL from infrastructure to a cloud provider
• Make those analysis pipelines available as a self-serve resource for the FAS team
• Supporting the wider R&D team with general bioinformatics needs
• Supplement bioinformatics needs for a variety of Twist applications
• Troubleshooting the complex issues quickly and effectively
• Supporting the FAS team with improvements and troubleshooting
• Act as a subject matter expert for various software development projects
• Apply software engineering best practices to update and improve bioinformatics pipelines
• Collaborate with the wider bioinformatics team to improve the analysis pipelines, from a scientific, usability, and scalability perspective
• Collaborate with R&D and Field Application Scientists to recognize and address software automation opportunities and scalability bottlenecks

Skills: Python, Cloud Infrastructure, Self-service Resource, Bioinformatics, Troubleshooting, Continuous Improvement, Software Engineering, Collaboration

• Implement and maintain bioinformatics workflows for processing data generated in the wet lab and in the public domain
• Develop web interfaces that allow for direct access to data generated in the wet lab and the public domain
• Provide statistical and machine learning insights. and follow software development best practices
• Implement and maintain databases for raw and processed genomics data
• Maintaining the current knowledge of data-related technologies
• Communicate with internal data and bioinformatic stakeholders frequently, create presentations, and lead tutorials
• Design and implementation of bioinformatics-based solutions for personalized medicine
• Develop the data-driven applications, know and be able to apply Next Generation Sequencing
• Design and implementation of highly scalable, cloud-based microservices
• Develop the highly stable and well-documented code for a medical application

Skills: Bioinformatics Workflow, Web Interface, Statistics, Database Management, Technological Awareness, Communication, Medicine Solutions, NGS Expertise

• Design, develop, and operate computational pipelines for next-generation sequencing data
• Develop/maintain a knowledge base of variants and annotations discovered in the processing of samples
• Develop new and/or improve upon existing algorithms for variant detection (SNPs and indels)
• Structural variant detection (CNVs, inversions, and translocations)
• Able to work on both large-scale projects and small custom tasks that span a wide variety of analysis problems
• Develop bioinformatics tools and pipelines for use by bioinformaticians and bench scientists
• Deploy and maintain pipelines and workflows to the cloud
• Analyze massively parallel sequencing, genomics, and multi-omics data
• Contribute to experimental design
• Consult with bench scientists to help answer questions about the data and analysis

Skills: Computational Pipeline, Variant Knowledge, Algorithm Development, Project Scalability, Tool and Pipeline, Cloud Deployment, Multi-omics Data Analysis, Experimental Design

• Prototype, build and maintain robust bioinformatics pipelines for a diverse range of data types
• Run data processing pipelines to generate large-scale genomics datasets used by thousands of researchers
• Collaborate closely with research and software development teams
• Maintain and organize computational infrastructure and resources
• Contribute to large-scale analyses, publications and development of computational tools.
• Develop workflows for the analysis of transcriptomic and genomic data for multiple applications
• Employing standard tools and developing novel algorithms
• Integrate single-cell omics data with Deepcell’s proprietary morphological profiling technology. 
• Work in close collaboration with engineering, software, biology, and data science teams on new product features and external collaborations.

Skills: Bioinformatics Pipeline, Data Processing, Collaboration, Infrastructure Maintenance, Publications, Workflow Development, Algorithm Development, Omics Data

• Develop scientific software tools, software engineering, bioinformatics algorithm design, pipeline development and implementation.
• Provide engineering leadership in collaboration with scientists and other engineers 
• Facilitate deep exploration of multidimensional preclinical and clinical omics data. 
• Design and develop scientific databases, and create methods to process and analyze omics data or other biological information. 
• Lead application development efforts and establish data engineering platforms 
• Enable the storage, organization, dissemination, and analytics of dynamic data generated from innovative research, exploratory and clinical studies. 
• Contribute to strategic planning and implementation of data engineering platforms for multiple functions 
• Ensure data accessibility, quality, and integrity, and will require leading local and off-shore engineering teams 
• Delivering informatics solutions and meeting business needs.

Skills: Scientific Software, Software Engineering, Bioinformatics Algorithm, Pipeline Development, Leadership, Data Exploration, Database Design

• Professional development experience with Python and CUDA
• Enthusiasm to work in an interdisciplinary team, and not afraid of complex problems
• Domain knowledge in Bioinformatics and Next Generation Sequencing
• Familiarity with Molecular Biology or Medical Applications of NGS
• Excellent understanding of Docker and Kubernetes
• Hands-on experience with the design of Microservices
• Knowledge of machine learning frameworks (PyTorch, Keras, Tensorflow)
• Familiarity with agile software development, and proficiency in Linux and bash
• Experience working with GitLab CI/CD pipelines
• Familiarity with commonly used genomics databases (COSMIC, dbSNP, etc).

Qualifications: BS in Bioinformatics with 6 years of experience

• Extensive prior experience in a field related to computer science, software engineering, bioinformatics, and genetics.
• Knowledge of workflow languages and frameworks (e.g. CWL, nextflow).
• Experience with code development, optimization, automation, and testing, using common version control solutions.
• Knowledge of statistical analysis and familiarity with common statistical environments (e.g. R and Bioconductor, SAS, etc.)
• Knowledge of cloud-based solutions on multiple providers (e.g. AWS, Azure, Google Cloud, OpenStack) 
• Experience in a clinical sequencing center or pharmaceutical/biomedical companies 
• Experience in processing next-generation sequencing (NGS) data.
• Knowledge of containerization platforms (e.g. Docker, Singularity).
• Experience developing tools for pipeline automation, analysis and reporting pipelines
• Computational skills including scripting languages (e.g. Python or Perl).

Qualifications: BS in Computer Science with 3 years of experience

• Experience with directed evolution methods for protein engineering
• Statistical training in high-throughput screening analyses and machine learning
• Familiarity with Adeno-Associated Virus (AAV) biology
• Understanding of gene synthesis and molecular library generation
• Experience with single-cell sequencing (10X Genomics, Drop-seq)
• Experience with non-Illumina sequencing platforms (PacBio, Oxford Nanopore, Ion Torrent)
• Working experience with unit testing (pytest and unittest)
• Experience with Django or Flask frameworks and basic web forms
• Basic familiarity with Python packaging
• Knowledge of packages/tools in the PyData stack (Pandas, Numba, Matplotlib, IPython, Jupiter, Sklearn, etc.)
• Experience with at least one statically typed language (C/C++, Java, Scala, C#, F#, Go, or Rust)
• Ability to create and use Docker containers or other provisioning framework (Chef, Puppet, Ansible, SaltStack, CloudFormation, etc.)

Qualifications: BS in Biological Sciences with 8 years of experience

• Knowledge of bioinformatics tools for NGS data analysis (e.g. Samtools, GATK, bwa-mem, etc.).
• Basic knowledge of molecular biology and genomics.
• Familiarity with system administration and networking.
• In-depth experience with bioinformatics tools development.
• Professional understanding of and experience with C# or Java programming.
• Experience with next-generation sequencing data and targeted sequencing.
• Strong communication skills, both verbal and written
• Practical knowledge of scripting languages, e.g. R, Python
• Experience in pipeline development in Windows and Unix-based environments
• Experience working with cloud-based deployment 

Qualifications: BS in Biomedical Engineering with 5 years of experience

• Advanced knowledge of bioinformatics, statistics, or computer science
• Professional experience working in a bioinformatics role
• A deep knowledge and experience analyzing genetics data including NGS and/or arrays
• Familiarity or experience with NGS Primary analysis (image processing, machine learning, quality metrics)
• Understand the detailed statistical and algorithmic workings of modern variant calling packages (GATK)
• Comfortable reading source code for large open-source projects with a preference for Python
• Excellent communication (written and verbal) and data presentation skills
• Working experience with somatic or low-input DNA assays
• Working experience with germline projects, and variant calling tools
• Be advanced in programming tools and/or software development

Qualifications: BA in Computer Information Systems with 4 years of experience

• Experience in Bioinformatics, Computational Biology, Computer Science, Engineering, or any other similar field
• Working experience in high-throughput genome sequencing analysis
• Bioinformatics pipeline development working experience with familiarity with current trends in related literature
• A mastery of bioinformatics tools, data, and concepts
• Strong programming skills in Python or a related language, and database skills
• Working experience with Git and GitHub, JIRA, CI/CD, unit testing
• Strong communication skills (both verbal and written) in a collaborative environment
• Knowledge of biology and laboratory procedures with AWS/Docker expertise
• Experience with software engineering best practices and developing well-documented, production code in non-academic environments.
• Familiarity with standard tools and data formats related to gene expression, enrichment analysis, genetic, genomic, or epigenetic data

Qualifications: BS in Genetics with 7 years of experience