Remote Bioinformatician II: Viral Genomics & Surveillance

IHRC, Inc.; Atlanta (GA); Remote; USD 90,000 - 130,000; Full time

Job summary

IHRC, Inc. seeks a Bioinformatician II to support CDC programs in viral genomic surveillance and genomic epidemiology. This remote role may travel to Atlanta as needed, with no travel expenses provided.

You will develop pipelines, QA data, and analyze sequencing data using standard tools like minimap2, BWA, Bowtie2, SAMtools, FastQC, iVar, and IGV, while collaborating with a multidisciplinary team.

Qualifications

• Experience performing bioinformatics analysis in research, clinical, or public health settings.
• Experience executing established analytical workflows independently.
• NGS data processing and QC.
• Amplicon-based and/or hybrid-capture sequencing methods.
• Viral genome assembly, reference-based analysis, consensus generation, and variant analysis.
• Linux command-line proficiency.
• Python, R, and Bash scripting.
• Git or other version-control systems.
• Reproducible workflow development (Nextflow or similar).
• Docker and/or Apptainer/Singularity containerization.
• HPC or cluster computing environments.
• Phylogenetic analysis and related software.
• Genomic epidemiology or pathogen genomic surveillance.
• Management and analysis of sequencing metadata.
• SQL and relational databases.

Responsibilities

• Perform routine and moderately complex bioinformatics analyses, develop and maintain workflows, troubleshoot data and pipeline issues, and support surveillance activities.
• Develop, revise, document, and maintain SOPs and procedures for bioinformatics analyses and data-processing workflows.
• Perform production-level QC, processing, and analysis of NGS data from internal and external sources.
• Process and evaluate common genomic data formats (FASTQ, BAM/CRAM, VCF, FASTA) and associated metadata.
• Apply software tools for sequence alignment, read processing, quality assessment, variant analysis, assembly, and visualization.
• Identify and resolve data-quality issues in sequencing outputs and metadata.
• Support genomic data-processing workflows from receipt to submission to databases or surveillance systems.
• Develop and maintain reproducible pipelines for viral sequence analysis using established tools and version-controlled environments.
• Apply Linux-based methods and scripting (Python, R, Bash) to automate workflows.
• Use containerization (Docker/Apptainer) and HPC environments to run analyses.
• Integrate bioinformatics workflows with LIMS and other data-management platforms.
• Work with amplicon-based and hybrid-capture approaches for viral pathogens.

Skills

Bioinformatics analysis

Linux CLI

Python

R

Bash

Nextflow

Docker

Apptainer

HPC

Phylogenetics

Genomic surveillance

SQL

Git

Education

MS or PhD in relevant field

Tools

Nextflow

Git

Docker

Apptainer

BWA/Minimap2

Job description

IHRC, Inc. seeks a Bioinformatician II to support CDC programs in viral genomic surveillance and genomic epidemiology. This remote role may travel to Atlanta as needed, with no travel expenses provided.

You will develop pipelines, QA data, and analyze sequencing data using standard tools like minimap2, BWA, Bowtie2, SAMtools, FastQC, iVar, and IGV, while collaborating with a multidisciplinary team.