Bioconductor annotation data package for SomaScan

Welcome to the SomaScan.db annotation package. The purpose of this package is to provide detailed annotation information for SomaLogic's SomaScan platform. This package is updated biannually.

Objects in this package are accessed using the select() interface. See this package's vignettes for more details, or reference ?AnnotationDbi::select from the AnnotationDbi package.

Value

A platform-centric annotation package.

See also

AnnotationDb-class for use of keys(), columns() and select().

Examples

## select() interface:
## Objects in this package can be accessed using the select() interface
## from the AnnotationDbi package. See ?select for details.
columns(SomaScan.db)
#>  [1] "ACCNUM"       "ALIAS"        "ENSEMBL"      "ENSEMBLPROT" 
#>  [5] "ENSEMBLTRANS" "ENTREZID"     "ENZYME"       "EVIDENCE"    
#>  [9] "EVIDENCEALL"  "GENENAME"     "GENETYPE"     "GO"          
#> [13] "GOALL"        "IPI"          "MAP"          "OMIM"        
#> [17] "ONTOLOGY"     "ONTOLOGYALL"  "PATH"         "PFAM"        
#> [21] "PMID"         "PROBEID"      "PROSITE"      "REFSEQ"      
#> [25] "SYMBOL"       "UCSCKG"       "UNIPROT"     

## Bimap interface:
# The 'old style' of interacting with these objects is manipulation as 
# bimaps. While this approach is still available we strongly encourage the
# use of select().
ls("package:SomaScan.db")
#>  [1] "SomaScan"               "SomaScan.db"           
#>  [3] "SomaScanALIAS2PROBE"    "SomaScanENSEMBL"       
#>  [5] "SomaScanENSEMBL2PROBE"  "SomaScanENTREZID"      
#>  [7] "SomaScanENZYME"         "SomaScanENZYME2PROBE"  
#>  [9] "SomaScanGENENAME"       "SomaScanGO"            
#> [11] "SomaScanGO2ALLPROBES"   "SomaScanGO2PROBE"      
#> [13] "SomaScanMAP"            "SomaScanOMIM"          
#> [15] "SomaScanORGANISM"       "SomaScanORGPKG"        
#> [17] "SomaScanPATH"           "SomaScanPATH2PROBE"    
#> [19] "SomaScanPMID"           "SomaScanPMID2PROBE"    
#> [21] "SomaScanREFSEQ"         "SomaScanSYMBOL"        
#> [23] "SomaScanTARGETFULLNAME" "SomaScanUNIPROT"       
#> [25] "SomaScanUNIPROT2PROBE"  "SomaScan_dbInfo"       
#> [27] "SomaScan_dbconn"        "SomaScan_dbfile"       
#> [29] "SomaScan_dbschema"      "addTargetFullName"     
#> [31] "columns"                "keys"                  
#> [33] "keytypes"               "mapIds"                
#> [35] "select"                 "somascan_menu"