[R] Efficient way of loading files in R

[Deepa]

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On Fri, Sep 7, 2018 at 3:38 PM Deepa <deepamahm.iisc using gmail.com> wrote:

> Hello,
>
> I am using a bioconductor package in R.
> The command that I use reads the contents of a file downloaded from a
> database and creates an expression object.
>
> The syntax works perfectly fine when the input size is of 10 MB. Whereas,
> when the file size is around 40MB the object isn't created.
>
> Is there an efficient way of loading a large input file to create the
> expression object?
>
> This is my code,
>
>
> library(gcrma)
> library(limma)
> library(biomaRt)
> library(GEOquery)
> library(Biobase)
> require(GEOquery)
> require(Biobase)
> gseEset1 <- getGEO('GSE53454')[[1]] #filesize 10MB
> gseEset2 <- getGEO('GSE76896')[[1]] #file size 40MB
>
> ##gseEset2 doesn't load and isn't created
>
> Many thanks
>
>
>

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