Author

Zachary Foster

Agricultural Research ServiceORCID 0000-0002-5075-0948Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Research Focus:software / tool· 3 Approach:experimental assay· 2 Research Focus:variant calling· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Assay:metagenomics· 1

Frequent Co-Authors

Niklaus J. GrünwaldiD· 3 shared Alexandra J. WeisbergiD· 1 shared Andrew S. TupperiD· 1 shared Camilo H. Parada-RojasiD· 1 shared Caroline M. PressiD· 1 shared Fernanda Iruegas-BocardoiD· 1 shared Hung Phan· 1 shared Jeff H. ChangiD· 1 shared

Activity by Year

2017-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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3 shared papersBioinformatics

Niklaus J. GrünwaldORCID

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Author profile →

3 papers

Recent·Most cited

PathogenSurveillance: an automated pipeline for population genomic analyses and pathogen identification

Zachary Foster, Martha A. Sudermann, Camilo H. Parada-Rojas, Logan K. Blair, Fernanda Iruegas-Bocardo, Upasana Dhakal, Ricardo Iván Alcalá-Briseño, Hung Phan, Tori R. Schummer, Alexandra J. Weisberg, Jeff H. Chang, Niklaus J. Grünwald

PathogenSurveillance automates population genomic analyses of WGS data to enable rapid pathogen identification and biosurveillance.

bioRxiv · Oct 31, 2025 · PreprintBioinformatics

Krisp: A python package for designing CRISPR and amplification-based diagnostic assays from whole genome data

Zachary Foster, Andrew S. Tupper, Caroline M. Press, Niklaus J. Grünwald

Krisp designs CRISPR and amplification-based diagnostic assays from whole genome data to differentiate pathogen groups, validated with Phytophthora ramorum data.

bioRxiv · Nov 16, 2023 · PreprintBioinformatics

Metacoder: An R Package for Visualization and Manipulation of Community Taxonomic Diversity Data

Zachary Foster, Thomas J. Sharpton, Niklaus J. Grünwald

Metacoder is an R package that enables parsing, manipulation, and visualization of hierarchical community taxonomic data through flexible plotting and analysis functions.

PLoS Computational Biology · Feb 21, 2017Peer-reviewedBioinformatics