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High-Throughput GoMiner's input files are similar to those used in GUI GoMiner. This page includes several example files configured to be used through both the web interface and the command-line interface.

CVID Example Input and Output

The following sample input files are in the High-Throughput GoMiner paper, and can be used on their own to explore the tool. The command-line examples may require editing the configuration file with the details of your local installation environment.

Input files packaged for command-line interface

• Command-line files, including sample config

Input files packaged for web interface

• List of all genes in experiment
• List of changed genes (2 column)

Also included as part of this example is the output file that we generated from these data files.

• Example of Output Files Generated from the CVID Data

Yeast ORF Input

We have also provided an example that makes use of GoMiner's synonym lookup feature. This is a yeast data set that is annotated using the ORF notation.

Input files packaged for command-line interface

• Command-line files, including sample config

Input files packaged for web interface

• List of all genes in experiment
• Package of multiple changed-gene files in the 2 column format

Examples formatted for use in the original graphical user interface (GUI) version of GoMiner are also available

GoMiner™ is a development of the Genomics and Pharmacology Facility, Developmental Therapeutics Branch (DTB), Center for Cancer Research (CCR), National Cancer Institute (NCI).

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