The somascan_menu object provides users with a quick and easy method for
retrieving analytes available in SomaLogic's SomaScan assay menus. The
object is available whenever the SomaScan.db package is loaded.
Format
A list containing the following elements:
- v4.0_analytes
A character vector of SomaScan analytes from V4.0 of the SomaScan menu (commonly referred to as "5k"). The V4.0 vector contains 4,966 elements in
SeqIdformat (e.g.1234-56).- v4.1_analytes
A character vector of SomaScan analytes from V4.1 of the SomaScan menu (commonly referred to as "7k"). The V4.1 vector contains 7,267 elements in
SeqIdformat (e.g.1234-56).- v5.0_analytes
A character vector of SomaScan analytes from V5.0 of the SomaScan menu (commonly referred to as "11k"). The V5.0 vector contains 10,731 elements in
SeqIdformat (e.g.1234-56).
Data Description
The somascan_menu object is a list of character vectors of analytes
available in each SomaScan menu. The currently available vectors in
the somascan_menu object correspond to the V4.0 ("5k"), V4.1 ("7k"),
and V5.0 ("11k") menus, and are named accordingly. Older menus (ex. the
5k menu) contain fewer analytes than more recent releases (ex. the
11k menu), and each subsequent release introduces new analytes targeting
additional protein epitopes. Consequently, the 7k menu contains all
analytes present in the 5k menu, but the 5k menu does not contain all
analytes in the 7k menu.
Examples
# View the structure of the list and its elements (i.e. SomaScan menus)
summary(somascan_menu)
#> Length Class Mode
#> v4.0 4966 -none- character
#> v4.1 7267 -none- character
#> v5.0 10731 -none- character
# Preview each element in the list
str(somascan_menu)
#> List of 3
#> $ v4.0: chr [1:4966] "10000-28" "10001-7" "10003-15" "10006-25" ...
#> $ v4.1: chr [1:7267] "10000-28" "10001-7" "10003-15" "10006-25" ...
#> $ v5.0: chr [1:10731] "10000-28" "10001-7" "10003-15" "10006-25" ...