micone.conversion package

Submodules

micone.conversion.network_converter module

Module containing methods that convert networks into various formats

micone.conversion.network_converter.json_to_elist(in_file: Path, out_file: Path) → None[source]

Convert Network file from json to elist format Note that only the edge attributes can be converted

Parameters:

  • in_file (pathlib.Path) – The path to the json formatted network file

  • out_file (pathlib.Path) – The path to the elist formatted network file

micone.conversion.otu_converter module

micone.conversion.taxmetadata_converter module

Module containing methods that convert taxonomy metadata into various formats

micone.conversion.taxmetadata_converter.default_to_qiime2(in_file: Path, out_file: Path) → None[source]

Convert Taxonomy metadata file from default format to qiime2

Parameters:

  • in_file (pathlib.Path) – The path to the default format input file

  • out_file (pathlib.Path) – The path to the qiime2 formatted output file

micone.conversion.taxmetadata_converter.qiime1_to_default(in_file: Path, out_file: Path) → None[source]

Convert Taxonomy metadata file from qiime1 to default format

Parameters:

  • in_file (pathlib.Path) – The path to the qiime1 formatted input file

  • out_file (pathlib.Path) – The path to the default format output file

micone.conversion.taxmetadata_converter.qiime2_to_default(in_file: Path, out_file: Path) → None[source]

Convert Taxonomy metadata file from qiime2 to default format

Parameters:

  • in_file (pathlib.Path) – The path to the qiime2 formatted input file

  • out_file (pathlib.Path) – The path to the default format output file

Module contents