Job ID:
Job date: 2018-04-10
End Date:
Company : Pathway Genomics Country : Role : Research Scientist
Job date: 2018-04-10
End Date:
Company : Pathway Genomics Country : Role : Research Scientist
Job Description:
The successful candidate will develop bioinformatics pipelines and analysis software to support clinical assays. Candidate will work jointly with staff from the clinical laboratory, R&D and IT/Engineering. Scientist will provide data analysis support for the R&D group during assay development. He/She will be called upon to analyze problems, provide algorithmic solutions, and deploy solutions in a cloud-based and high performance computing environments. Candidate must have strong coding skills, and be able to develop solutions from scratch when necessary. Also, must have a wide breadth of knowledge of general open source bioinformatics tools, and their appropriate application. Scientist will continually evaluate new open source and commercial bioinformatics software, to identify the best solutions appropriate the requirements of each assay. The developer will collect user requirements and specifications from various groups. Scientist must have experience in good software documentation practices, included the process of developing documentation to execute installations, performance and operational qualifications. This position will be responsible for training laboratory staff, and in maintaining the bioinformatics pipelines in the production environment. Candidate will stay apprised of relevant bioinformatics literature and present at conferences. Position will report to the Director of Bioinformatics. Requirements:
Additional Info:
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The successful candidate will develop bioinformatics pipelines and analysis software to support clinical assays. Candidate will work jointly with staff from the clinical laboratory, R&D and IT/Engineering. Scientist will provide data analysis support for the R&D group during assay development. He/She will be called upon to analyze problems, provide algorithmic solutions, and deploy solutions in a cloud-based and high performance computing environments. Candidate must have strong coding skills, and be able to develop solutions from scratch when necessary. Also, must have a wide breadth of knowledge of general open source bioinformatics tools, and their appropriate application. Scientist will continually evaluate new open source and commercial bioinformatics software, to identify the best solutions appropriate the requirements of each assay. The developer will collect user requirements and specifications from various groups. Scientist must have experience in good software documentation practices, included the process of developing documentation to execute installations, performance and operational qualifications. This position will be responsible for training laboratory staff, and in maintaining the bioinformatics pipelines in the production environment. Candidate will stay apprised of relevant bioinformatics literature and present at conferences. Position will report to the Director of Bioinformatics. Requirements:
- Experience developing NGS analysis pipelines for a CLIA/CAP approved laboratory.
- Experience validating clinical assays and in good documentation practices.
- Software development in a Linux based environment and must be an expert user in shell programming.
- Experience developing software for both the cloud (AWS) and for SGE high performance clusters.
- Experience in a high-level programming or scripting language such as Python, Java, perl, C, C++.
- Experience interacting with LIMS system and integrating pipelines with LIMS systems.
- Experience with various bioinformatics tools for variant calling and alignments. Such as GATK, BWA, bedtools, Samtools, bcl2fastq
- Background in statistical analysis a plus.
- Experience working in an Agile development environment.
- Some experience performing wetlab work a plus.
- Minimum PhD, MS + 2 years.
Requeriments :
Skills :
- Bioinformatics
- HPC
- LIMS
- Lunix/Unix
- Next Generation Sequencing
- Programing in C
- Programing in C++
- Programing in Python
- Programming in Java
- Programming in PERL
- Shell scripting
- Software Design
- Statistics
Areas :
Additional Info:
[Click Here to Access the Original Job Post]