writefit: Write MArrayLM Object to a File

In richierocks/limma2: Linear Models for Microarray Data

Description

Write a microarray linear model fit to a file.

Usage

write.fit(fit, results=NULL, file, digits=3, adjust="none", method="separate", F.adjust="none", sep="\t", ...)

Arguments

fit	object of class MArrayLM containing the results of a linear model fit
results	object of class TestResults
file	character string giving name of file
digits	integer indicating precision to be used
adjust	character string specifying multiple-testing adjustment method for the t-statistic P-values, e.g., "BH". See p.adjust for the available options. If NULL or "none" then the P-values are not adjusted.
method	character string, should the P-value adjustment be "global" or "separate" for each contrast.
F.adjust	character string specifying adjustment method for the F-statistic P-values.
sep	the field separator string. Values in the output file will be separated by this string.
...	other arguments are passed to write.table

Details

This function writes a tab-delimited text file containing for each gene (1) the average log-intensity, (2) the log-ratios, (3) moderated t-statistics, (4) t-statistic P-values, (5) F-statistic if available, (6) F-statistic P-values if available, (7) classification if available and (8) gene names and annotation.

Value

No value is produced but a file is written to the current working directory.

Author(s)

Gordon Smyth

See Also

write in the base library.

An overview of linear model functions in limma is given by 06.LinearModels.

richierocks/limma2 documentation built on May 27, 2019, 8:47 a.m.