Man pages for GenomicDataCommons
NIH / NCI Genomic Data Commons Access
| aggregations | aggregations |
| available_expand | Return valid values for "expand" |
| available_fields | S3 Generic to return all GDC fields |
| available_values | Find common values for a GDC field |
| constants | Endpoints and Parameters |
| count | provide count of records in a 'GDCQuery' |
| default_fields | S3 Generic to return default GDC fields |
| dot-htseq_importer | Import multiple files of HTSeq-counts format |
| entity_name | Get the entity name from a GDCQuery object |
| expand | Set the 'expand' parameter |
| faceting | Set facets for a 'GDCQuery' |
| field_description | S3 Generic that returns the field description text, if... |
| filtering | Manipulating GDCQuery filters |
| gdc_cache | Work with gdc cache directory |
| gdc_client | return gdc-client executable path |
| gdc_clinical | Get clinical information from GDC |
| gdcdata | Download GDC files |
| gdc_rnaseq | Get RNA-seq quantification from the NCI GDC. |
| gdc_token | return a gdc token from file or environment |
| GenomicDataCommons | ncigdc: A package for computating the notorious bar... |
| grep_fields | Find matching field names |
| id_field | get the name of the id field |
| ids | Get the ids associated with a GDC query or response |
| make_filter | Create NCI GDC filters for limiting GDC query results |
| manifest | Prepare GDC manifest file for bulk download |
| mapping | Query GDC for available endpoint fields |
| query | Start a query of GDC metadata |
| readDNAcopy | Read DNAcopy results into GRanges object |
| readHTSeqFile | Read a single htseq-counts result file. |
| response | Fetch 'GDCQuery' metadata from GDC |
| results | results |
| results_all | results_all |
| select | S3 generic to set GDCQuery fields |
| slicing | Query GDC for data slices |
| status | Query the GDC for current status |
| transfer | Bulk data download |
| write_manifest | write a manifest data.frame to disk |
