# pamr.batchadjust

From pamr v1.56.1
by Rob Tibshirani

##### A function to mean-adjust microarray data by batches

A function to mean-adjust microarray data by batches

##### Usage

`pamr.batchadjust(data)`

##### Arguments

- data
The input data. A list with components: x- an expression genes in the rows, samples in the columns, and y- a vector of the class labels for each sample, and batchlabels- a vector of batch labels for each sample.

##### Details

`pamr.batchadjust`

does a genewise one-way ANOVA adjustment for expression values.
Let x(i,j) be the expression for gene i in sample j.
Suppose sample j in in batch b, and let B be the set of all samples
in batch b. Then `pamr.batchadjust`

adjusts x(i,j) to
x(i,j) - mean[x(i,j)] where the mean is taken over all samples j in B

##### Value

A data object of the same form as the input data, with x replaced by the adjusted x

##### Examples

```
# NOT RUN {
suppressWarnings(RNGversion("3.5.0"))
set.seed(120)
#generate some data
x <- matrix(rnorm(1000*20),ncol=20)
y <- sample(c(1:4),size=20,replace=TRUE)
batchlabels <- sample(c(1:5),size=20,replace=TRUE)
mydata <- list(x=x,y=factor(y),batchlabels=factor(batchlabels))
mydata2 <- pamr.batchadjust(mydata)
# }
```

*Documentation reproduced from package pamr, version 1.56.1, License: GPL-2*

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