parseQubicBlocks {rqubic}

R Documentation

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

Details

Parse QUBIC Command Line Tool Output Files

Value

parseQubicRules and parseQubicChars both return a data frame.

parseQubicBlocks returns an instance of QUBICBiclusterSet class.

Author(s)

Jitao David Zhang <jitao_david.zhang@roche.com>

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)

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