summarizeExpData {Genominator} | R Documentation

## Summarize a data column

### Description

This function returns a summary of one or more data columns, as indicated by a particular SQLite query function.

### Usage

    summarizeExpData(expData, what = getColnames(expData, all = FALSE),
      fxs = c("TOTAL"), preserveColnames = TRUE, whereClause = "",
      verbose = getOption("verbose"))

### Arguments

`expData` | An object of class `ExpData`.
`what` | Vector of names of data columns to be summarized.
`fxs` | Vector of strings giving the names of SQLite functions to call on the data column.
`preserveColnames` | Logical indicating whether column names should be preserved.
`whereClause` | Additional filtration criteria, customizable to refer to additional data columns. See Details for more explanation.
`verbose` | Logical indicating whether details should be printed.

### Details

The argument `whereClause` should be a string indicating a subset of the data to be selected. For example, if you have a column called `category`, you could specify `"category = 1"` to select only those data entries where category has a value of 1. This function operates as a database query, and thus the argument can include logical combinations of multiple criteria using SQL boolean operators.

### Value

A vector with results of summarization.

### Author(s)

James Bullard bullard@berkeley.edu, Kasper Daniel Hansen khansen@jhsph.edu

### References

The available `SQLite` functions are listed here: http://www.sqlite.org/lang_aggfunc.html

### See Also

See `Genominator` vignette for more information.

### Examples

    ed <- ExpData(system.file(package = "Genominator", "sample.db"),
                  tablename = "raw")
    summarizeExpData(ed)
    summarizeExpData(ed, fxs = c("MIN", "MAX", "AVG"))

[Package Genominator version 1.40.0 Index]