Upgrade, minfi 1.6.0 is ancient.

Kasper


On Wed, May 21, 2014 at 11:45 AM, guest [guest] <guest@bioconductor.org>wrote:

> Dear Users,
>
> I tried to convert the set to ratioset using ratioConvert(), but it has an
> error message
>
> > ratioConvert(RGset, what = c("beta", "M", "both"), keepCN = TRUE)
> Error: could not find function "ratioConvert"
>
> I installed minfi and load the library, I don't get it why this error
> message coming out?
>
> Thanks,
>
>
>  -- output of sessionInfo():
>
> > sessionInfo()
> R version 3.0.3 (2014-03-06)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> locale:
>  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
>  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
>  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] parallel  stats     graphics  grDevices utils     datasets  methods
> [8] base
>
> other attached packages:
>  [1] FDb.UCSC.snp137common.hg19_1.0.0
>  [2] GenomicFeatures_1.12.4
>  [3] IlluminaHumanMethylation450k.db_2.0.7
>  [4] org.Hs.eg.db_2.9.0
>  [5] RSQLite_0.11.4
>  [6] DBI_0.2-7
>  [7] AnnotationDbi_1.22.6
>  [8] minfiData_0.3.4
>  [9] IlluminaHumanMethylation450kannotation.ilmn.v1.2_0.1.3
> [10] IlluminaHumanMethylation450kmanifest_0.4.0
> [11] methylumi_2.6.1
> [12] ggplot2_0.9.3.1
> [13] reshape2_1.4
> [14] scales_0.2.4
> [15] lumi_2.12.0
> [16] minfi_1.6.0
> [17] Biostrings_2.28.0
> [18] GenomicRanges_1.12.5
> [19] IRanges_1.18.4
> [20] reshape_0.8.5
> [21] lattice_0.20-29
> [22] Biobase_2.22.0
> [23] BiocGenerics_0.8.0
>
> loaded via a namespace (and not attached):
>  [1] affy_1.38.1           affyio_1.28.0         annotate_1.38.0
>  [4] beanplot_1.1          BiocInstaller_1.10.4  biomaRt_2.16.0
>  [7] bitops_1.0-6          BSgenome_1.28.0       colorspace_1.2-4
> [10] digest_0.6.4          grid_3.0.3            gtable_0.1.2
> [13] illuminaio_0.2.0      KernSmooth_2.23-12    limma_3.16.8
> [16] MASS_7.3-33           Matrix_1.1-3          matrixStats_0.8.14
> [19] mclust_4.3            mgcv_1.7-29           multtest_2.16.0
> [22] munsell_0.4.2         nleqslv_2.1.1         nlme_3.1-117
> [25] nor1mix_1.1-4         plyr_1.8.1            preprocessCore_1.22.0
> [28] proto_0.3-10          R.methodsS3_1.6.1     RColorBrewer_1.0-5
> [31] Rcpp_0.11.1           RCurl_1.95-4.1        Rsamtools_1.12.4
> [34] rtracklayer_1.20.4    siggenes_1.34.0       splines_3.0.3
> [37] stats4_3.0.3          stringr_0.6.2         survival_2.37-7
> [40] tools_3.0.3           XML_3.98-1.1          xtable_1.7-3
> [43] zlibbioc_1.6.0
>
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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