merge {CALIB} | R Documentation

## Merge RGList_CALIB or SpikeList objects

### Description

Merge two `RGList_CALIB` objects or two `SpikeList` objects in possibly irregular order.

### Usage

     ## S3 method for class 'RGList_CALIB':
     merge(x,y,...)

### Arguments

`x` | an `RGList_CALIB` object or an `SpikeList` object.
`y` | corresponding `RGList_CALIB` object or `SpikeList` object. Has the same genes or spikes as `x`, possibly in a different order,but with different arrays.
`...` | other arguments can be used in `merge` in the base packge.

### Details

`RGList_CALIB` and `SpikeList` objects are list objects containing numeric matrices with the same dimensions. The RGLists_CALIB or SpikeLists are merged by merging each of the components by row names or, if there are no row names, by IDs in the `genes` component. Unlike when using `cbind`, row names are not required to be in the same order or to be unique. In the case of repeated row names, the order of the rows with repeated names in preserved. This means that the first occurrence of each name in `x$R` is matched with the first occurrence of the same name in `y$R`, the second with the second, and so on. The final vector of row names is the same as in `x`.

### Value

An merged object of the same class as `x` and `y` with the same components as `x`. Components matrices have the same row names as in `x` but columns from `y` as well as `x`.

### Note

If the `RGList_CALIB` or `SpikeList` objects contain the same number of genes or spikes in the same order then the appropriate function to combine them is `cbind` rather than `merge`.

### Author(s)

Hui Zhao

### References

`merge` in limma package

### See Also

`merge` in the base package

`merge` in the limma package

### Examples

    R1 <- G1 <- matrix(1:8,4,2)
    rownames(R1) <- rownames(G1) <- c("g1","g1","g2","g3")
    colnames(R1) <- colnames(G1) <- c("a1","a2")
    RG1 <- new("RGList_CALIB",list(R=R1,G=G1))

    R2 <- G2 <- matrix(9:16,4,2)
    rownames(R2) <- rownames(G2) <- c("g2","g3","g1","g1")
    colnames(R2) <- colnames(G2) <- c("a3","a4")
    RG2 <- new("RGList_CALIB",list(R=R2,G=G2))

    RG12 <- merge(RG1,RG2)
    RG21 <- merge(RG2,RG1)

[Package CALIB version 1.2.0 Index]