decoupler.op.resource

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decoupler.op.resource#

decoupler.op.resource(name, organism='human', license='academic', verbose=False)#

Wrapper to access resources inside Omnipath [TureiKSR16].

This wrapper allows to easly query different prior knowledge resources. To check available resources run decoupler.op.show_resources(). For more information visit the official [website](https://omnipathdb.org/).

Parameters:

  • name (str) – Name of the resource to query.

  • organism (str (default: 'human')) – The organism of interest. By default human.

  • license (str (default: 'academic')) – Which license to use, available options are: academic, commercial, or nonprofit. By default, is set to academic to retrieve all possible interactions. Users are expected to comply with license regulations according to their affiliation.

  • verbose (bool (default: False)) – Whether to display progress messages and additional execution details.

  • kwargs – Passed to decoupler.op.translate.

Returns:

Network in long format.

Example

import decoupler as dc

df = dc.op.resource(name="PanglaoDB")
df
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