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GenePrioritization tool help

GenePrioritization (2021_06-89-gbbd16264)

Performs gene prioritization based on list of known disease genes of a disease and a PPI graph.

Mandatory parameters:
  -in <file>       Input TSV file with one gene identifier per line (known disease genes of a disease).
  -graph <file>    Graph TSV file with two gene identifiers per line (PPI graph).
  -out <file>      Output TSV file containing prioritized genes for the disease.

Optional parameters:
  -method <enum>   Gene prioritization method to use.
                   Default value: 'flooding'
                   Valid: 'flooding,random_walk'
  -n <int>         Number of network diffusion iterations (flooding).
                   Default value: '2'
  -restart <float> Restart probability (random_walk).
                   Default value: '0.4'
  -debug <file>    Output TSV file for debugging
                   Default value: ''

Special parameters:
  --help           Shows this help and exits.
  --version        Prints version and exits.
  --changelog      Prints changeloge and exits.
  --tdx            Writes a Tool Definition Xml file. The file name is the application name with the suffix '.tdx'.

GenePrioritization changelog

GenePrioritization 2021_06-89-gbbd16264

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