Man pages for seandavi/MungeCuratedMGS
Data munging for Curated Microbiome Signatures
| create_experiment_table | create experiment table |
| create_keys | create_keys |
| create_signature_table | create signature table |
| create_statistical_test_table | create the statistical test table |
| create_study_table | create study table in two-table data model |
| curation_sheet | return the curation worksheet (sheet #2) |
| dot-read_ontology_from_bioportal_url | Helper function to do download since files are .gzipped |
| experimentCols | experimentCols |
| get_efo | Download the common columns from EFO |
| get_synonyms | get and parse synonyms |
| get_synonyms_file | download taxonomy synonyms |
| get_taxon_dump_files | download and untar ncbi taxonomy |
| get_taxon_file | get taxon file |
| get_taxon_names | get and parse the 'names.dmp' from taxon dump archive |
| get_uberon | Download the common columns from UBERON |
| google_microbial_sig_sheet | return a reference to the google curation sheet |
| metaphlan2ncbi | metaphlan2ncbi |
| studyCols | studyCols |
| testImportExport | unit tests for data re-import |
