Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
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Updated
Jun 23, 2024 - Nextflow
Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
Microbial Sequence Analysis and Loci-based Typing pipeline for use on NGS WGS data.
Quantitative microbial risk assessment modeling
A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.
A computational tool for the prediction and identification of metabolites.
A repository for R code, data, figures, scripts from the manuscript "Abundance-occupancy relationships along taxonomic ranks reveal a consistency of niche differentiation in bacterioplankton with distinct lifestyles" (Submitted).
Easy-to-use tool facilitating work with Mothur.
MATLAB scripts and functions for Microbial Network Analysis (MNA)
Genomics lessons for week 4 of the Microbial Diversity course at the Marine Biological Lab in Woods Hole, MA.
Microbial community samples collected from the Trunk River in Woods Hole, MA 2014-2016.
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