Update Assay

update_assay() updates an existing assay type in the assay lookup table

Usage

update_assay(con, assay_id, assay)

Arguments

con

A DBI connection object obtained from DBI::dbConnect()

assay_id

A numeric ID for the targeted assay get_assays

assay

A valid assay dataframe with the following:

1. code character A short code for the assay

2. assay_name character The assay's name

3. description character Short description of assay

See also

Other assay functions: add_assay(), delete_assay(), get_assays(), update_assay_status()

Examples

# example database connection
cfg <- config::get()
con <- DBI::dbConnect(RPostgres::Postgres(),
                      dbname = cfg$dbname,
                      host = cfg$host,
                      port = cfg$port,
                      user = cfg$username,
                      password = cfg$password)
#> Error: connection to server at "localhost" (::1), port 5432 failed: Connection refused (0x0000274D/10061)
#> 	Is the server running on that host and accepting TCP/IP connections?
#> connection to server at "localhost" (127.0.0.1), port 5432 failed: Connection refused (0x0000274D/10061)
#> 	Is the server running on that host and accepting TCP/IP connections?

all_assays <- get_assays(con)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'dbObj' in selecting a method for function 'dbIsValid': object 'con' not found
View(all_assays) # to view the ID of the assay needing updates
#> Error in eval(expr, envir, enclos): object 'all_assays' not found
updated_assay <- data.frame(code = "OTS28E1",
                            assay_name = "Ots28 Early 1",
                            description = "Targets GREB1L region")

update_assay(con, 1, updated_assay)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'dbObj' in selecting a method for function 'dbIsValid': object 'con' not found