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STAMP

STAMP is a software package for analyzing taxonomic or metabolic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. Statistical hypothesis tests for pairs of samples or groups of samples is support along with a wide range of exploratory plots. STAMP encourages the use of effect sizes and confidence intervals in assessing biological importance. A user friendly, graphical interface permits easy exploration of statistical results and generation of publication quality plots for inferring the biological relevance of features in a metagenomic profile. STAMP is open source, extensible via a plugin framework, and available for all major platforms.

References:

There are multiple versions of STAMP available. An easy way of selecting the version is to use modules. To see the modules available, type

module avail STAMP

To select a module, type

module load STAMP/[ver]

where [ver] is the version of choice.

Environment variables set:

On Helix

Sample session:

module load STAMP
STAMP

This application requires an X-Windows connection.

Interactive job on Biowulf

Once the session has started, the steps are exactly as on Helix.

Documentation