Bioinformatician Lotterhos Lab

About the Opportunity

About the Center for Marine Ecological Genomics

The successful candidate will be based at the Lotterhos Lab and the Center for Marine Ecological Genomics at Northeastern Marine Science Center in Nahant Massachusetts. This is an in-person position.

Job Summary

We are seeking a skilled Bioinformatician to join our consortium in Marine Macrogenomics which seeks to create a database of interoperable population genomic data for 5000 genomes from 100 species. The successful candidate will play a central role in developing and maintaining scalable computational pipelines for the analysis of large-scale genomic datasets with a focus on short-read alignment and population-level inference. This is an exciting opportunity to contribute to cutting-edge research in ecological and conservation genomics.

Minimum Qualifications

Required

• Masters degree in Biology Ecology and Evolution Bioinformatics Computational Biology Genetics or a related field
• 2-5 years of hands-on experience in bioinformatics with demonstrated work in genomics
• Proficiency in short-read alignment tools such as BWA Bowtie2 and STAR
• Familiarity with downstream processing tools such as SAMtools Genome Analysis Toolkit (GATK) and Picard
• Experience writing pipelines using workflow management systems such as Snakemake or Nextflow
• Solid scripting skills in Python R and Bash
• Comfort working on the command line including in a Unix/Linux environment
• Familiarity with high-performance computing (HPC) and high-throughput computing (HTC) environments and job schedulers such as SLURM and HTCondor
• Experience using application programming interfaces (APIs) to send and receive data and/or experience using tools to transfer large amounts of data between remote servers

Preferred

• PhD or 3 years of post-Masters experience preferred
• Experience with population genomic analyses and tools such as ANGSD PLINK ADMIXTURE TreeMix or similar platforms
• Familiarity with handling non-model organism genomes or low-coverage sequencing data
• Experience with version control systems such as Git and containerization technologies including Docker and Singularity/Apptainer
• Track record of contributing to published research

Key Responsibilities & Accountabilities

• Collaborate and coordinate with members of the network including wet lab and computational team members to define data standards ensure analytical reproducibility and assist with project goals
• Design build and maintain reproducible bioinformatics pipelines capable of scaling across many population genomic datasets
• Align short-read sequencing data including whole-genome and Restriction Site Associated DNA Sequencing (RADseq) datasets to reference genomes using standard and emerging tools and evaluate mapping quality across diverse datasets
• Perform downstream population genomic analyses including variant calling filtering and quality control
• Document pipelines and analyses clearly for internal use and publication
• Develop educational tutorials and assist with website development
• Collate publicly available data and metadata corresponding with authors as necessary to ensure data standards

Position Type

Additional Information

Northeastern University considers factors such as candidate work experience education and skills when extending an offer.

All qualified applicants are encouraged to apply and will receive consideration for employment without regard to race religion color national origin age sex sexual orientation disability status or any other characteristic protected by applicable law.

Compensation Grade/Pay Type:

Expected Hiring Range:

With the pay range(s) shown above the starting salary will depend on several factors which may include your education experience location knowledge and expertise and skills as well as a pay comparison to similarly-situated employees already in the role. Salary ranges are reviewed regularly and are subject to change.