An interactive web application that provides a flexible graphical user interface (GUI) to the Reverse Ecology analysis package for R
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Updated
Apr 5, 2016 - R
An interactive web application that provides a flexible graphical user interface (GUI) to the Reverse Ecology analysis package for R
Statistical and Computational methods for Microbiome Studies.
Microbiome Amplicon Analysis and Visualization
Generic code for performing microbiome-wide association studies with a variety of models
🌊 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM
A computational pipeline for high-resolution profiling of low abundance microbiome in clinical samples using whole genome shotgun sequencing
Conditional regression based on a multivariate zero-inflated logistic normal model for microbiome relative abundance data
pairwise comparison between two OTU - species abundance tables
R scripts used for the analysis of microbiomes associated with stony coral tissue loss disease (SCTLD) in the Florida Reef Tract
Microbiome analysis for phosphate-defense interaction
Identifying gut microbiome features associated with the risk of acquiring an enteric drug-resistant organism (e.g. vancomycin-resistant Enterococcus and resistant gram-negative bacteria) in patients recently discharged from acute-care hospital and admitted into nursing homes.
Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.
Infer network from count data within Snakemake using a sparse Poisson lognormal model (PLNnetwork)
General purpose package containing useful functions for microbiome analysis pipelines
R workflows used to analyze microbial community sequence data
Code to reproduce the analyses from the paper "Benchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases"
R scripts used for the analysis of microbiomes of nursery-reared Acropora cervicornis
Metagenomics calibration R package
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