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 5,000 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
- Master's 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-Master's 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

Apply here: https://northeastern.wd1.myworkdayjobs.com/careers/job/Nahant-MA/Bioinformatician---Lotterhos-Lab_R142449
Review of applications starts on October 1, with a start date as soon as possible.

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