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Vinicius Henrique da Silva
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40
@vinicius-henrique-da-silva-6713
Last seen 17 months ago
Brazil
I am trying to use the 'readGVF' function but it seems to be inexistent.
> library("cnvGSAdata") > library(cnvGSA) > readGVF() Error: could not find function "readGVF" > sessionInfo() R version 3.2.2 (2015-08-14) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=C LC_COLLATE=C [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] stats4 parallel stats graphics grDevices utils datasets [8] methods base other attached packages: [1] cnvGSAdata_1.6.0 cnvGSA_1.14.0 splitstackshape_1.4.2 [4] data.table_1.9.6 GenomicRanges_1.22.0 GenomeInfoDb_1.6.0 [7] IRanges_2.4.0 S4Vectors_0.8.0 BiocGenerics_0.16.0 [10] doParallel_1.0.10 iterators_1.0.8 foreach_1.4.3 [13] brglm_0.5-9 profileModel_0.5-9 BiocInstaller_1.20.0 loaded via a namespace (and not attached): [1] codetools_0.2-14 chron_2.3-47 zlibbioc_1.16.0 XVector_0.10.0 [5] tools_3.2.2
Any idea why?
I got the function from this website:
http://rgm3.lab.nig.ac.jp/RGM/R_rdfile?f=cnvGSA/man/readGVF.Rd&d=R_BC
Moreover, I found 'readGVF' function in cnvGSA vignette (page6).
Right. And that page shows that they are using R-3.0.2, which is old. The last version of cnvGSA that had that function is three releases ago. If you want to use the version of that package that has that function, you could install R-3.0.2 and then use biocLite() to install. Or you could use the current version - I assume the updated vignette is also updated vis a vis reading in data, so I would start there.