These pipeline and workflow tools provide out-of-the box solutions for metagenomic analysis by chaining a number of specific analysis tools together.
Aims to be a comprehensive software package that allows users to use a single piece of software to analyze community sequence data. mothur builds upon previous tools to provide a flexible and powerful software package for analyzing sequencing data. Extensive community-supported documentation and support are available through a MediaWiki-based wiki and a discussion forum.
Allows users to perform interactive microbiome analysis. Phyloseq records the complete user input and subsequent graphical results of a user’s session, permitting researchers to archive, share and reproduce the sequence of steps that created their result. This program includes a network panel that animates vertex connectedness as a change in the distance threshold, and scales edge thickness according to inverse distance value.
A computational pipeline for pathogen identification from complex metagenomic next-generation sequencing (NGS) data generated from clinical samples.