rqubic (version 1.18.0)

parseQubicBlocks: Parse QUBIC Command Line Tool Output Files

Description

These functions parse output files of the QUBIC command line tool developed by Ma et al.

Usage

parseQubicRules(filename)
parseQubicChars(file, check.names=FALSE, ...)
parseQubicBlocks(filename)

Arguments

filename

Input filename

file

Input filename

check.names

logical, should the column names be checked?

...

other parameters passed to the read.csv function

Value

parseQubicRules and parseQubicChars both return a data frame.parseQubicBlocks returns an instance of QUBICBiclusterSet class.

Details

Parse QUBIC Command Line Tool Output Files

References

http://csbl.bmb.uga.edu/~maqin/bicluster/

Examples

getRqubicFile <- function(filename) system.file("extdata", filename, package="rqubic")

## parse QUBIC rules
rule.file <- getRqubicFile("sampleExpressionSet.rules")
rqubic.sample.rule <- parseQubicRules(rule.file)

## parse QUBIC chars
chars.file <- getRqubicFile("sampleExpressionSet.chars")
rqubic.sample.chars <- parseQubicChars(chars.file)

## parse QUBIC blocks
block.file <- getRqubicFile("sampleExpressionSet.blocks")
rqubic.sample.data <- parseQubicBlocks(block.file)