Tag: CWL

CWl and toil singularity image e.g busybox? Thank you 0 I am new to CWL and toil. Can someone suggest a simple “hello world” sort of example to use singularity image e.g busybox? Obviously this command doesnt work: toil-cwl-runner –jobStore my_jobStore –singularity –singularity-image busybox example.cwl example-job.yml toil singularity • 24…

“Unlock Your Career in Bioinformatics: Join Illumina as a Support Scientist!” –Must See– Illumina Bioinformatics Support Scientist Job Illumina is a leading provider of genomics solutions dedicated to improving human health by unlocking the power of the genome. We are currently seeking a Bioinformatics Support Scientist to join our team…

“Breaking News: Syngene Hiring Research Investigator For Cutting-Edge Biotech Role!” –Must See– Syngene Bioinformatics Research Job – Biotech Can Also Apply Online Incorporated in 1993, Syngene International Ltd. is an innovation-focused global discovery, development, and manufacturing organization providing integrated scientific services to the pharmaceutical, biotechnology, nutrition, animal health, consumer goods,…

Details Posted: 01-Dec-23 Location: Santa Cruz, California Salary: Open Categories: Information Technology Staff/Administrative Senior Bioinformatics Systems Analyst Location: Santa CruzJob ID: 61781 JOB POSTING NO VISA SPONSORSHIP IS AVAILABLE FOR THIS POSITION.THIS RECRUITMENT WILL REMAIN OPEN UNTIL FILLED. HOW TO APPLY For full consideration, applicants should attach their resume and…

The Center for Applied Bioinformatics (CAB) at the St. Jude Children’s Research Hospital (SJCRH) is seeking a creative Software Engineer with a strong background in bioinformatics to join our development team to create and maintain our vital analytical infrastructure. The new hire will work closely with a team of computer…

About UsWe are an early stage startup using generative AI to fundamentally change life sciences research and accelerate the pace of biomedical discovery. Genomic data are at the heart of most modern molecular studies and tools, from basic research to clinical decision support, but these data are hard to work…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

Passionate about precision medicine and advancing the healthcare industry? Recent advancements in underlying technology have finally made it possible for AI to impact clinical care in a meaningful way. Tempus’ proprietary platform connects an entire ecosystem of real-world evidence to deliver real-time, actionable insights to physicians, providing critical information about…

mvdbeek November 10, 2023, 9:13am 1 Is it possible to catch expressions that access (potentially) undefined variables before runtime ? Take as an example the following diff as applied to github.com/common-workflow-library/bio-cwl-tools/blob/91c42fb809ce18eafe16155cca0abf362270c0fe/fastp/fastp.cwl: diff –git a/fastp/fastp.cwl b/fastp/fastp.cwl index 575c91f..b6be4eb 100755 — a/fastp/fastp.cwl +++ b/fastp/fastp.cwl @@ -19,7 +19,7 @@ baseCommand: fastp arguments: -…

What if the work you did every day could impact the lives of people you know? Or all of humanity? At Illumina, we are expanding access to genomic technology to realize health equity for billions of people around the world. Our efforts enable life-changing discoveries that are transforming human health…

  Bioinformatics Scientist (Data Science) Research – Data Sciences           ·            Cambridge, MA             ·          Full time    About Voyager Therapeutics  Voyager Therapeutics (Nasdaq: VYGR) is a biotechnology company dedicated to breaking through barriers in…

The European Bioinformatics Institute (EMBL-EBI) offers a wide range of bioinformatics sequence analysis applications for free through web and programmatic access. This two-day course is designed to provide a comprehensive overview of sequence analysis tools and how to use the workflows effectively, covering hands-on exercises and demonstrations throughout.  The first…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

DescriptionPosition Title: Sr. Bioinformatics AnalystNumber of Positions Needed: 1Length of Contract: 1yrLocation/Site: Lake CountyRemote, 100% Onsite, or Hybrid Onsite Schedule: FlexibleThe Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of…

Job title: Bioinformatics analystLocation: Remote (Remote, 100% Onsite, or Hybrid Onsite Schedule: Flexible)Duration: 12 months Pay Range: $53 – $56/hr The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of…

Location: Remote Contract Length: 12-months Pay Rate: $52 – $57 Senior Bioinformatics Analyst The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing…

Bengaluru, India Illumina Full time What if the work you did every day could impact the lives of people you know? Or all of humanity?At Illumina, we are expanding access to genomic technology to realize health equity for billions of people around the…

Bangalore, India Illumina Full time What if the work you did every day could impact the lives of people you know? Or all of humanity?At Illumina, we are expanding access to genomic technology to realize health equity for billions of people around the…

CWL definition modification 0 This is a block of my cwl file which I would like to modify output_zipfile: label: Bioset Zipfile outputBinding: glob: – “$(get_output_dir())/*.zip” type: File[] Here the argument is Required and Multivalve I tried with this output_zipfile: label: Bioset Zipfile outputBinding: glob: – “$(get_output_dir())/*.zip” type: – ‘null’…

The Center for Applied Bioinformatics (CAB) at the St. Jude Children’s Research Hospital (SJCRH) is seeking a creative Software Engineer with a strong background in bioinformatics to join our development team to create and maintain our vital analytical infrastructure. The new hire will work closely with a team of computer…

General Summary & Overview StatementThe Iafrate Lab conducts pioneering research in the field of clinical genomics, working to develop personalized approaches to early cancer detection, diagnosis, and therapy. We are seeking a highly motivated bioinformatician with a background in statistics and/or software development to be a part of our team…

Job Description SummaryJob DescriptionWe are the makers of possibleBD is one of the largest global medical technology companies in the world. Advancing the world of health™ is our Purpose, and it’s no small feat. It takes the imagination and passion of all of us—from design and engineering to the manufacturing…

Job Description Summary Job Description We are the makers of possible BD is one of the largest global medical technology companies in the world. Advancing the world of health™ is our Purpose, and it’s no small feat. It takes the imagination and passion of all of us-from design and engineering…

Please do not reinvent the wheel – for your own sanity, because if you want to write that from the bottom up, you need a team of software engineers and at least (!) a year of time*. So rather check what is already out there in the Bioinfo world: Galaxy…

JOB SUMMARY  The Research Specialist IV – Bioinformatics performs routine and complex scientific work, evaluating, selecting and applying procedures and techniques to assignments with clear, specific objectives. Assignments require investigation of a number of variables and complex features.  Working with limited supervision, the role is required to exercise judgment in…

We are in search of an expert Research Specialist IV – Bioinformatics to join our innovative team at Sidra Medical and Research Center in Qatar, Qatar.Growing your career as a Full Time Research Specialist IV – Bioinformatics is a terrific opportunity to develop essential skills.If you are strong in creativity,…

How to specify an optional input for a complex type in CWL? 1 I need to pass an array as an optional argument in a CWL tool definition. I know that for primitive types [‘null’, <type>] works fine, but for array it generates an error: Type property “[‘null’, ‘array’]” not…

SHIFT: Day (United States of America) Bioinformatics Engineer III – Children’s Hospital of Philadelphia (Philadelphia, PA): Lead the data integrity and bioinformatics data analysis of enterprise-level projects in the Center for Data-Driven Discovery in Biomedicine (D3b). Duties include: lead a bioinformatics data operational team responsible for the main bioinformatics analysis…

Color is a health technology company that makes population-scale healthcare programs accessible, convenient, and cost-effective for everyone. We work with governments, public health institutions, employers, and national health initiatives around the world to provide the tools for preventive health and infectious disease management, including testing, vaccinations, and other services. Apply…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

General Summary & Overview StatementThe Iafrate Lab conducts pioneering research in the field of clinical genomics, working to develop personalized approaches to early cancer detection, diagnosis, and therapy. We are seeking a highly motivated bioinformatician with a background in statistics and/or software development to be a part of our team…

GENERAL SUMMARY & OVERVIEW STATEMENT: The Iafrate Lab conducts pioneering research in the field of clinical genomics, working to develop personalized approaches to early cancer detection, diagnosis, and therapy. We are seeking a highly motivated bioinformatician with a background in statistics and/or software development to be a part of our…

Our mission is to make biology easier to engineer. Ginkgo is constructing, editing, and redesigning the living world in order to answer the globe’s growing challenges in health, energy, food, materials, and more. Our bioengineers make use of an in-house automated foundry for designing and building new organisms.    Ginkgo…

Our mission is to make biology easier to engineer. Ginkgo is constructing, editing, and redesigning the living world in order to answer the globe’s growing challenges in health, energy, food, materials, and more. Our bioengineers make use of an in-house automated foundry for designing and building new organisms. Ginkgo Bioworks…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

Program Trainee Job ID: req3518Employee Type: exempt full-timeDivision: Bioinformatics and Computational ScienceFacility: Telework: USLocation: USA The Frederick National Laboratory is a Federally Funded Research and Development Center (FFRDC) sponsored by the National Cancer Institute (NCI) and operated by Leidos Biomedical Research, Inc. The lab addresses some of the most…

Job Title – Bioinformatics Software EngineerDuration- Fulltime Job Summary As a bioinformatics software engineer member of a computational biology team, be a key contributor into turning research prototypes of bioinformatics algorithms developed by other team members into robust and efficient production-grade R&D computational pipelines and small interactive applications in the…

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing extraordinary genetics and genomics research, focusing on finding the right targets and helping us better understand not only human…

Bioinformatics Analyst – Data Scientists Job ID: req1171Employee Type: exempt full-timeDivision: Bioinformatics and Computational ScienceFacility: Rockville: 9605 MedCtrDrLocation: 9605 Medical Center Drive, Rockville, MD 20850 USA The Frederick National Laboratory is a Federally Funded Research and Development Center (FFRDC) sponsored by the National Cancer Institute (NCI) and operated by Leidos…

Description:* The Field Bioinformatics Support Scientist partners with customers, front-line field personnel, and internal stakeholders to provide pre-sales support, customer success solutions, technical training, troubleshooting, and complaint resolution with respect to industry bioinformatic tools. This position serves as a scientific and technical consultant during pre-and post-sales activities and will collaborate…

We are looking for an intelligent, hard-working, and dynamic individual to join Bioinformatics and Molecular Data group, a subdivision of the Dana-Farber Cancer Institute (DFCI) Informatics and Analytics Department. The group encompasses expertise in bioinformatics, machine learning, and computational biology and works with some of the most prominent research and…

Bioinformatics Scientist II Labcorp is recruiting a Bioinformatics Scientist II to join the Specialty Genomics group in support of R&D activities. This position may be fully remote. Analyses range from early stage exploratory to full CAP/CLIA validated clinical studies. Primary duties will include: Assumes primary responsibility for designing and implementing…

Galaxy has over the last month gained a powerful and extensible exporting framework. Two export formats have alreaady been added to Galaxy: Every format can be downloaded directly, or written to pluggable Galaxy file sources (Dropbox, Google Drive, FTP, S3 …). The feature described here will be part of the…

Senior Bioinformatics Scientist – Surf Search Submit Your Resume About the job   Are you seeking an opportunity where you can lead the technological advancement of precision medicine in a well-established research environment? Do you want to use your knowledge and experience to lead the expansion of a rapidly growing…

Bioinformatics Scientist II Labcorp is recruiting a Bioinformatics Scientist II to join the Specialty Genomics group in support of R&D activities. This position may be fully remote. Analyses range from early stage exploratory to full CAP/CLIA validated clinical studies. Primary duties will include: Assumes primary responsibility for designing and implementing…

Job Description To discuss more about this job opportunity, please reach out to Chitrank Rastogi (LinkedIn URL – www.linkedin.com/in/chitrank-rastogi-55119a102/), email your updated resume at chitrank.rastogi@collabera.com or give me a call at (425) 523-1648. Thank you! Pay Range – $40 to $45/hr. (negotiable) Job Description:Job Roles & Responsibilities:   The Genomics…

Job Description Key Duties/Responsibilities: Develop and support NGS pipelines using scientific workflow language via best practices, including unit testing, CI/CD, containerization, and code reviews. Identify, design, and implement internal process improvements: automating manual processes, optimizing data delivery, re-designing infrastructure for greater scalability, etc. Build the infrastructure required for optimal extraction,…

The Job Dispatcher service at the EMBL-EBI provides access to various sequence analysis tools and a database retrieval system (Dbfetch). This virtual course is split into two sessions running over two days.  During the first session, you will learn how to access and use our sequence…

Global biotechnology company focusing on molecular biology and applications, informatics, engineering, electronics, manufacturing and commercialisation. Their sequencing platform allows for rapid insights, that analyse DNA and RNA data. The Customer Analysis Workflows are responsible for communicating bioinformatic analyses to end users through various media from software libraries, notebook tutorials,…

About the team/jobThe Data Science Centre, launched in February 2022 to promote cutting-edge research and services in Data Science across all of EMBL, is looking for a bioinformatician, computational biologist or computer scientist as a Data Management Coordinator. The Data Science Centre will ensure that biological research data at our…

Computational Biologist, Clinical Bioinformatics – Remote Job Details Job ID: 26821 Location: 450 Brookline Ave, Boston, MA 02215 Category: Clinical Research Employment Type: Full time Work Location: Full Remote: 4-5 days remote/wk Overview The NGS Bioinformatics Group at Dana-Farber Cancer Institute seeks a Computational Biologist to work on Profile, our…

Job Description Are you a computer geek with a strong interest in genomics? Do you want to use your computational skills to solve human diseases? At the Department of Neurology at Harvard Medical School and Brigham & Women’s Hospital, we have two vacant positions: postdoctoral fellow and research scientist in…

Details Posted: 22-Apr-22 Location: Chicago, Illinois Type: Full-time Salary: Open Categories: Research – Laboratory/Non-Laboratory Staff/Administrative Location: Hyde Park Campus Job Description: Leads a team of bioinformaticians and provides technical guidance for the team to follow best practices and deliver data production timely. Collaborates cross-functionally with our user services, software engineering,…

About Color Color’s mission is to help people lead the healthiest lives that science and medicine can offer. We launched in April 2015 with a simple, affordable genetic test to help people understand their risk for hereditary cancer. In 2017, we added coverage for hereditary heart conditions. Between them, cancer…

Materials and Methods Genomic data was collected as part of the MDS National History Study or The Cancer Genome Atlas project and consented appropriately under those protocols 8 Sekeres M.A. Gore S.D. Stablein D.M. DiFronzo N. Abel G.A. DeZern A.E. Troy J.D. Rollison D.E. Thomas J.W. Waclawiw M.A. Liu J.J….

Could it happen that a cwl created in a different editor is not correctly parsed in rabix composer? 0 Hi, I’d need to load in rabix composer (a cwl graphical editor) cwl files (vs.1.0) created in different editors. 90% of the times “external” cwls are correctly parsed, but it could…

Summary At Solvuu, we are building technology to revolutionize bioinformatics and data science. We are seeking an accomplished, self-motivated and ambitious bioinformatics engineer with a strong track record in developing, executing, and maintaining bioinformatics pipelines on AWS for biotech R&D. The successful candidate will have the opportunity to drive and…

Job:Bioinformatics Engineer, Molecular Diagnostics Labs, UCLA Health 0 You will be part of a team of molecular biologists, medical geneticists, and bioinformaticians working together to analyze new and archival clinical cases using high throughput sequencing. As one of a newer team of software engineers, you will have the unique opportunity…

Description Basepair develops SaaS to manage, analyze and interpret next generation sequencing (NGS) data. Scientists and physicians working in molecular diagnostics, biopharma, assay development at top universities like Harvard, Stanford, NYU, UCSD, etc. use Basepair to make breakthrough medical discoveries and provide better medical care to patients. Founded by a…

PROGRAM DESCRIPTION We are seeking an enthusiastic, creative, and collaborative bioinformatics software engineer to support pipeline development and analysis for our broad portfolio of genomic studies. If you have experience designing and deploying robust, reproducible, production-quality pipelines, then come join our talented team of bioinformaticians dedicated to understanding the genetics…

CWL capture multiple output files with prefix 0 I have a CommandLineTool demo, and run as: demo –AA file1.txt –BB file2.txt –CC file3.txt –nthreads 4 input file: –AA output file： –BB –CC The fllowing CWL doesn’t work. error: (“Error collecting output for parameter ‘ofile1’:ndemo.cwl:32:7: Did not find output file with…