combo.gds {bigmelon} | R Documentation

## Combine two different gds objects.

### Description

Combines the shared gdsn.class nodes between two gds objects depending on primary gds.object dimensions.

### Usage

    combo.gds(file, primary, secondary)

### Arguments

`file` | Name of the new gds file to be created.
`primary` | A gds.class object.
`secondary` | A gds.class object.

### Details

–EXPERIMENTAL– Will crudely combine shared nodes between primary and secondary based on the dimensions / rownames of the primary node. NAs will be coerced where probes are missing from secondary gds.

Will only look for nodes with the names "betas", "methylated", "unmethylated", "pvals" and "NBeads".

### Value

a new gds object that has both files within it

### Note

Will lose information relating to "pData". Therefore we recommend compiling separate pData object manually and adding combined pData post-function

### Author(s)

Tyler Gorrie-Stone <tgorri@essex.ac.uk>

### Examples

    data(melon)
    a <- es2gds(melon[,1:6], "primary.gds")
    b <- es2gds(melon[,7:12], "secondary.gds")

    ab <- combo.gds("combo.gds", primary = a, secondary = b)

    closefn.gds(a)
    unlink("primary.gds")
    closefn.gds(b)
    unlink("secondary.gds")
    closefn.gds(ab)
    unlink("combo.gds")

[Package bigmelon version 1.6.0 Index]