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-rw-r--r--man/drdata.Rd46
1 files changed, 24 insertions, 22 deletions
diff --git a/man/drdata.Rd b/man/drdata.Rd
index 0c1e901..8f545da 100644
--- a/man/drdata.Rd
+++ b/man/drdata.Rd
@@ -1,8 +1,8 @@
\name{drdata}
\alias{drdata}
-\title{Get dose-response data}
+\title{Get dose-response data via RODBC}
\description{
- Get dose-response data from a remote mysql server
+ Get dose-response data from an adequate ODBC data source
}
\usage{
drdata(substances, experimentator = "\%", db = "cytotox", celltype = "IPC-81",
@@ -14,39 +14,40 @@
A string or an array of strings with the substance names for
which dose-response data is to be retrieved.}
\item{experimentator}{
- The name of the experimentator whose data is to be used. Default is "%", which
- means that data from all experimentators are retrieved.}
+ The name of the experimentator whose data is to be used. Default is "%",
+ which means that data from all experimentators are retrieved.}
\item{db}{
- The database to be used. Currently, the databases "cytotox" and "enzymes"
- of the UFT Department of Bioorganic Chemistry are supported (default is
- "cytotox").}
+ The database to be used. Currently, the databases "cytotox", "enzymes"
+ and "ecotox" of the UFT Department of Bioorganic Chemistry are
+ supported (default is "cytotox").}
\item{celltype}{
- Currently, only data for IPC-81, C6, NB4, HeLa, Jurkat and U937 are supported.}
+ Currently, only data for IPC-81, C6, NB4, HeLa, Jurkat and U937 are
+ supported.}
\item{enzymetype}{
Currently, only data for AChE, GR and GST are supported.}
\item{organism}{
The organism that was exposed to the chemical. Only important if the database
"ecotox" is used. Defaults to "Vibrio fischeri".}
\item{endpoint}{
- The endpoint that should be used for selecting the data. Only important if the
- database "ecotox" is used. Defaults to "Vibrio fischeri".}
+ The endpoint that should be used for selecting the data. Only important if
+ the database "ecotox" is used. Defaults to "Luminescence".}
\item{whereClause}{
With this argument, additional conditions for the SQL query can be set,
e.g. "plate != 710" (i.e. "Do not retrieve data for plate 710"). The
default is 1 (in SQL syntax this means TRUE).}
\item{ok}{
- With the default value "'ok','no fit'", only data that has been checked and set to "ok"
- or "no fit" in the database is retrieved. The argument "no fit" will result
- in not using the data for fitting, but it will be plotted.
- Another sensible argument would be "'ok','no fit','?'", in order to additionally
- retrieve data which has not yet been checked.}
+ With the default value "'ok','no fit'", only data that has been checked and
+ set to "ok" or "no fit" in the database is retrieved. The argument "no fit"
+ will result in not using the data for fitting, but it will be plotted.
+ Another sensible argument would be "'ok','no fit','?'", in order to
+ additionally retrieve data which has not yet been checked.}
}
\value{
\item{data}{
- A data frame with a factor describing the dose levels, the numeric dose levels
- and a numeric column describing the response, as well as the entries for
- plate, experimentator, performed (date of test performance), celltype, unit
- (of the dose/concentration), and for the ok field in the database.}
+ A data frame with a factor describing the dose levels, the numeric dose
+ levels and a numeric column describing the response, as well as the entries
+ for plate, experimentator, performed (date of test performance), celltype,
+ unit (of the dose/concentration), and for the ok field in the database.}
}
\details{
The function is currently only used for retrieving data from the
@@ -74,11 +75,12 @@
Database \tab = \tab cytotox \cr
Server \tab = \tab eckehaat \cr
Port \tab = \tab 3306 \cr
- }.
+ }
}
\examples{
-# Get cytotoxicity data for Tributyltin and zinc pyrithione, tested with IPC-81 cells
-\dontrun{data <- drdata(c("TBT","ZnPT2"))}
+# Get cytotoxicity data for Tributyltin and zinc pyrithione, tested with IPC-81
+# cells
+\dontrun{drdata(c("TBT","ZnPT2"))}
}
\author{
Johannes Ranke

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