Josh Earl
Bioinformatics Consultant
Philadelphia, Pennsylvania, United States
Summary
👤
Senior🎓
Top SchoolJosh Earl is a bioinformatics consultant and research leader with 14 years of hands-on experience building genomics infrastructure, sequencing pipelines, and diagnostic workflows. He led the creation of Drexel’s Genomics Center and directed clinical and translational bioinformatics work including CAP/CLIA SOPs, high-throughput COVID PCR automation, and integrative WGS and microbiome pipelines across PacBio and Illumina platforms. Comfortable from hardware to high-performance Linux clusters, he programs analysis pipelines, manages databases and LIMS integrations, and teaches R-based statistical bioinformatics to graduates. His publications (30+ papers) and development of novel 16S/18S and fungal microbiome identification approaches reflect a blend of practical diagnostics and method development. Known for turning complex sequencing data into auditable clinical and research outputs, he’s now bringing that operational and technical depth to independent consulting.
14 years of coding experience
7 years of employment as a software developer
Doctor of Philosophy - PhD, Bioinformatics, Doctor of Philosophy - PhD, Bioinformatics at Drexel UniversityBachelor of Science, Biology and Environmental Studies, Bachelor of Science, Biology and Environmental Studies at Saint Lawrence UniversityMasters, Computational Biology, Masters, Computational Biology at Carnegie Mellon University
Github Skills (35)
classifier10
ggplot9
graphic8
r8
pthreads6
bioinformatics6
data-visualisation6
genome-annotation5
sequence5
phylogenetics5
classification5
taxonomy5
python-modules4
fasta4
microbiome3
Programming languages (7)
Github contributions (5)
jpearl01/mcsmrt
Sep 2016 - Nov 2021
Microbiome Classifier Pipeline for Pacific Biosciences 16s Data
Contributions:1 review, 58 commits, 57 pushes in 5 years 2 months
classifier
jpearl01/roary2R
Apr 2018 - May 2020
Contributions:12 pushes, 1 branch in 2 years 2 months
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