biopy-isatab Python parser for ISAtab
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Python library Python parser

biopy-isatab Description

biopy-isatab is a Python parser for extracting information from ISA-Tab formatted metadata. Usage is: from bcbio import isatab rec = isatab.parse(isatab_metadata_directory)The returned record matches the general Investigation/Study/Assay structure of ISATab. The top level ISATabRecord object contains information about the investigation, along with study information as ISATabStudyRecord objects. Each record has assay information in ISATabAssayRecord sub-objects.The output is described in more detail in the parser module:https://github.com/ISA-tools/biopy-isatab/blob/master/bcbio/isatab/parser.pyand the test directory contains example of use and information extraction:https://github.com/ISA-tools/biopy-isatab/blob/master/test/test_isatab.pyYou can also display the structure of an object by printing it:>>> print isatab_rec* ISATab Record metadata: {} studies: * Study metadata: {'Study Description': 'C2C12 mouse skeletal muscle cells', 'Study Identifier': 'SB-S-1', 'Study Submission Date': '2010-10-04'} nodes: * Node C2C12 sample3 rep3 Sample Name metadata: {'Sample Name': , 'organism': }Product's homepage

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