Statistics/machine learning

Metastats

Metastats is software for detecting differentially abundant features in metagenomic case/control studies. It is the first tool developed in the context of metagenomic data comprising multiple samples, and relies on a non-parametric t-test.

Metagenomic Assembly

Assembly and Analysis Software for Exploring the Human Microbiome

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Assembly
Gene Finding
Binning
Publications
Software

Metagenomic assembly

Principal Investigators

GOAL

Bayesian tool to integrate genetic and epigenetic data to find causal expression regulatory polymorphisms

Overview

Epiviz

Epiviz is an interactive visualization tool for functional genomics data. It supports genome navigation like other genome browsers, but allows multiple visualizations of data within genomic regions using scatterplots, heatmaps and other user-supplied visualizations. It also includes data from the Gene Expression Barcode project for transcriptome visualization. It has a flexible plugin framework so users can add d3 visualizations.

MetaPath

MetaPath can identify differentially abundant pathways in metagenomic data-sets, relying on a combination of metagenomic sequence data and prior metabolic pathway knowledge.

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