Search harmonized metadata created under the OmicsMLRepo project
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Documentation for package ‘OmicsMLRepoR’ version 1.3.0
Help Pages
| availableTerms | Extract all the terms used in a quired attribute/column |
| getLongMetaTb | Expands metadata with multiple values belong to a same attribute |
| getMetadata | Download a harmonized metadata table |
| getNarrowMetaTb | Collapse values from multiple columns into one |
| getOntoInfo | Query Ontology Lookup Service (OLS) |
| getShortMetaTb | Compresses expanded metadata columns to one row per sample |
| getWideMetaTb | Create individual columns for different attributes stored in one column |
| get_ontologies | Extract ontology from the ontology term ids |
| merge_vectors | Custom function to merge vectors |
| mini_cbio | A subset of cBioPortalData metadata |
| mini_cmd | A subset of cMD metadata |
| mini_cmd2 | A subset of cMD metadata |
| mini_cmd3 | A subset of cMD metadata |
| OmicsMLRepoR | OmicsMLRepoR: A package for browsing harmonized metadata through ontology |
| ontoSummarize | Groups ontology terms by the child term of a provided "parent" they fall under |
| ontoTreePlot | Plot ontology tree |
| sample_metadata | sample_metadata |
| spreadMeta | Manipulate metadata into a spread format |
| tree_filter | Keep rows that include the queried terms and their descendants |