From Waste to Feed | Insect Biotech Research Group
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Updated
Jul 10, 2024 - JavaScript
From Waste to Feed | Insect Biotech Research Group
StrainIQ is an n-gram based method to identify and quantify microbial communities in metagenomics samples.
Material for the lab course on anaerobic digestion
This repository contains scripts to run 9 different shotgun metagenomics profiling software on a rat tissue dataset as well as scripts for their downstream analysis (import into R, alpha/beta diversity, & differential abundant analysis).
Supplementary files for Ribeiro et al. ISME 2018
A general 16S rDNA sequencing analysis pipeline
A metabolic modeling workflow for communities of organisms in an nasal medium.
A coarse-grained biochemical resource allocation model of phototrophic growth.
RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.
Supplementary Material for Blasche et al
Implementation of soft body interaction models (for multiple particles). Includes applications to (1) soil mechanics, (2) microbiology. Variants of the method: discrete element method, individual based model, molecular dynamics.
Minimal Supplying Community Search with constraint-based optimization methods.
Benbow Lab at Michigan State University, Tutorials/example data for analysis of: 16S data, VCF files
GitHub repository to support the development of the thesis "Development of microbial community simulation methods to characterize and analyze the effects of metal concentrations on pathogen silencing/promotion".
Modelling and Inference of MICrobiomes Project (MIMIC) is a Python package dedicated to simulate, model, and predict microbial communities interactions
NOTE: The iroki command line tool is no longer maintained. Please see: https://github.com/mooreryan/iroki
a versatile approach to integrate heterogeneous datasets
Personal website
My intership at the IBEAS lab
Reproduce the figures in "The genetic basis for adaptation of model-designed syntrophic co-cultures"
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