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firebrowse portal API bindings for Python

Project description

Description

firebrowse: python bindings for the Broad Institute TCGA GDAC FireBrowse Portal.

This module facilitates programmatic interaction with TCGA data and analyses in firebrowse.org, through Python and the UNIX command line. It offers 3 sets of features:

1) Low-level object-oriented Python wrappers to the FireBrowse RESTful API. Methods in the low level interface by default return 1 page of query results per call, in JSON form. TSV, CSV, and Python dicts may be returned by specifying a suitable format= parameter, and multiple pages may be selected with a suitable page= parameter. See the set_codec() and param_values() functions for more details on these and other parameters.

2) A higher level Python interface that provides simplified access for common bioinformatic use cases. For example, objects do not need to be explicitly instantiated and functions by default return all pages of query results per call, in TSV format.

3) And the fbget tool, for accessing the high level interface directly from the UNIX command line.

For more details, documentation, and examples, see

https://confluence.broadinstitute.org/display/GDAC/fbget

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