Man pages for onertipaday/rcompass
R Client for the COMPASS GrapgQL API
| build_query | Process a GraphQL query from COMPASS API |
| create_module | create a module providing both biological features and sample... |
| create_module_bf | create a module based on provided biological features |
| create_module_ss | create a module based on provided sample sets |
| describe_module | describe a module |
| enrich_module | show the enrichment for ontology terms for both sampleSets... |
| get_annotation_triples | get_annotation_triples |
| get_available_compendia | Get all available compendia in COMPASS |
| get_available_normalization | get_available_normalization |
| get_available_plot_methods | show all available plot methods |
| get_biofeature_annotations | get_biofeature_annotations |
| get_biofeature_by_name | get_biofeature_by_name |
| get_biofeature_id | get_biofeature_id |
| get_biofeature_ranking | get_biofeature_ranking() |
| get_compass_version | get the current version of COMPASS |
| get_compendium_data_source | Get compendium data sources |
| get_experimentId_by_sampleSetId | Get experimentAccessid and experimentName from sampleName |
| get_experiments | Get experimentAccessid and experimentName from sampleName |
| get_ids_from_alias | get_ids_from_alias |
| get_ontologies | Get all available ontologies for the selected compendium |
| get_OntologyNode | get_OntologyNode |
| get_ontology_structure | get_ontology_structure |
| get_platform_information | Get information about all available platforms for the... |
| get_ranking | get_ranking |
| get_raw_data | get raw data for a particular sample |
| get_sample_annotation | get annotations for either n samples or selected sampleName |
| get_sample_by_gsm | retrieve internal id, name (GSM), description for sample... |
| get_samples | Get all samples measured with a given platform |
| get_samples_by_gse | retrieve internal id, name (GSM), description from all... |
| get_samples_by_sampleSet | Get all samples id for a selected sampleSet |
| get_sampleset_by_sampleid | get_sampleset_by_sampleid |
| get_sampleset_id | get_sampleset_id |
| get_samplesets_ranking | get_samplesets_ranking |
| get_samples_info | get_samples_info |
| get_sparql_annotation_triples | get_sparql_annotation_triples |
| plot_annotation_network | plot rdf network |
| plot_module_distribution | Plot a distribution from a model |
| plot_module_heatmap | plot heatmap from a module |
| plot_module_network | Plot a network from a model |
| rcompass-package | COMPASS (COMpendia Programmatic Access Support Software) API... |
| totalCounts | totalCounts for aggregated types |
| view_plot | Show a plot using the rstudio viewer |
