Question: biomaRt zebrafish
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gravatar for Steffen Durinck
13.8 years ago by
Steffen Durinck420 wrote:
Dear Georg, In the last release of Ensembl the zebrafish array hasn't been included, along with 3 other arrays that were present in the previous release. I am contacting the Ensembl people to see why this has happened (it looks like they just forgot to include it). For now a possible solution could be to work with a local installation of ensembl_mart_31 (see the archives on www.ensembl.org). I expect zebrafish to be included again in the next Ensembl release. Note that the latest biomaRt version should be downloaded from the developmental packages, the current version is 1.1.8 best regards, Steffen Dear Bioconductors, I have a question concerning biomaRt. I am running biomaRt 1.0.4 (which I think should be the newest version) on R 2.1.0 In the vignette, "Description of the biomaRt package" in chapter 3.11 it is shown how the command: mart<-martConnect() getAffyArrays(mart = mart) retrives a list of Affymetrix identifiers which are present in ensembl, and among those there is also the zebrafish array. However, when I reproduce this, I get a list of Affymtrix arrays, but the zebrafish array is missing. My question is now: what happened to the zebrafish array in ensembl? Has it been removed? Or is this a problem with my version of biomaRt? Thanks for your help! Georg _______________________________________________ Bioconductor mailing list Bioconductor at stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/bioconductor
zebrafish biomart • 525 views
ADD COMMENTlink written 13.8 years ago by Steffen Durinck420
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