[BioC] edgeR question (reading tab delimited files)

[Gordon K Smyth]

Hi Audra,

Have you tried following the examples in Sections 4.1 and 4.2 of the edgeR 
User's Guide?

However you will probably need to learn more about R itself to be 
comfortable, as Sam McInturf has noted in his reply.

Best wishes
Gordon


> Date: Sat, 14 Dec 2013 18:51:08 -0800 (PST)
> From: "Audra [guest]" <guest at bioconductor.org>
> To: bioconductor at r-project.org, audra.loy at mavs.uta.edu
> Subject: [BioC] edgeR question
>
>
> Hi,
>
> I am learning Edge R and am having trouble importing data. I have to tab delimited files, each of two different time points I am trying to look at.  How do I input these data into the edgeR program so that I can see the matrix? I hope this question makes sense.
>
> Audra
>
> -- output of sessionInfo():
>
>> sessionInfo
> function (package = NULL)
> {
>    z <- list()
>    z$R.version <- R.Version()
>    z$platform <- z$R.version$platform
>    if (nzchar(.Platform$r_arch))
>        z$platform <- paste(z$platform, .Platform$r_arch, sep = "/")
>    z$platform <- paste0(z$platform, " (", 8 * .Machine$sizeof.pointer,
>        "-bit)")
>    z$locale <- Sys.getlocale()
>    if (is.null(package)) {
>        package <- grep("^package:", search(), value = TRUE)
>        keep <- sapply(package, function(x) x == "package:base" ||
>            !is.null(attr(as.environment(x), "path")))
>        package <- sub("^package:", "", package[keep])
>    }
>    pkgDesc <- lapply(package, packageDescription, encoding = NA)
>    if (length(package) == 0)
>        stop("no valid packages were specified")
>    basePkgs <- sapply(pkgDesc, function(x) !is.null(x$Priority) &&
>        x$Priority == "base")
>    z$basePkgs <- package[basePkgs]
>    if (any(!basePkgs)) {
>        z$otherPkgs <- pkgDesc[!basePkgs]
>        names(z$otherPkgs) <- package[!basePkgs]
>    }
>    loadedOnly <- loadedNamespaces()
>    loadedOnly <- loadedOnly[!(loadedOnly %in% package)]
>    if (length(loadedOnly)) {
>        names(loadedOnly) <- loadedOnly
>        pkgDesc <- c(pkgDesc, lapply(loadedOnly, packageDescription))
>        z$loadedOnly <- pkgDesc[loadedOnly]
>    }
>    class(z) <- "sessionInfo"
>    z
> }
> <bytecode: 0x10328e4e0>
> <environment: namespace:utils>
>>
>
>
> --
> Sent via the guest posting facility at bioconductor.org.

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