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Add Assay

add_assay.Rd

add_assay() adds a new assay type to the assay lookup table

Usage

add_assay(con, assay)

Arguments

con

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

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: delete_assay(), get_assays(), update_assay(), 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?

new_assay <- data.frame(code = "OTS28E1",
                        assay_name = "Ots28_Early1",
                        description = "Targets GREB1L region; 58 bp away from
                                       OTS28L1 and targets a SNP")

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