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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 Bioinformatics Group, Developmental Therapeutics Branch (DTB), Developmental Therapeutics Program (DTP), Center for Cancer Research (CCR), National Cancer Institute (NCI). We would like to hear from you. You can reach the team via email.

GoMiner was originally developed jointly by the Genomics and Bioinformatics Group (GBG) of LMP, NCI, NIH and the Medical Informatics and Bioimaging group of BME, Georgia Tech/Emory University. It is now maintained and under continuing development by GBG.

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