Bioinformatician, Data Analyst (Part Time)

Genome assembly and quality assessment. Using PacBio HiFi, ONT, and Hi-C data to generate eukaryotic genome assemblies, including manual curation. Will use established protocols for genome assemblies and manual curation. Execute available software (e.g. Hifiasm, Verkko, Merqury) and custom-made scripts to generate highly accurate, complete, and phased assemblies. Genome annotation and variant detection. Execute established software (e.g. BRAKER, EDTA) to identify the main genome features (e.g. genes, repeats, transposable elements, and more), with guidance as needed. Genome alignments and comparison, variant calling, integration of other resources (e.g. transcriptome, optical maps) and similar analyses as the need may arise. Analyze novel and different datasets (e.g. 16S, transcriptome, resequencing) for project-specific goals (e.g. population genomics, demography, functional characterization), including the conceptualization and implementation of new methods. Reporting, meetings, dissemination. Summarize work in reports, tables, scientific manuscripts. Interact with colleagues and external partners to give and receive feedback. Attend meetings, take notes, contribute to writing manuscripts and research proposals. Knowledge, Skills Abilities Knowledge of plant genome analysis, evolutionary analyses, population genomics. Extended knowledge of genome sequencing technologies and handling of the data. High proficiency of Unix command line, executing software, developing and running workflows. Familiar with high-performance computing infrastructure. Experienced in Nextflow/Cromwell or other pipeline tools. Able to critically evaluate the quality of the results and to perform novel analyses as required. Excellent technical writing skills, maintaining and sharing documentation, note taking, and reporting at different audiences. Highly developed communication skills: verbal and digital.