Message-ID: <CAG4twXsF22xKjSn4xgDYpfaDRZ_hK6pW5S5WzeTwiSjK-nR46Q@mail.gmail.com>
Date: 2014-10-17T14:13:02Z
From: Panagiotis Moulos
Subject: [Bioc-devel] Change of schema of ENSEMBL biomart
In-Reply-To: <1413553706454.78781@kcl.ac.uk>
Hello,
Indeed there seems to be a global schema change regarding external_gene_id
to the latest versions of most Ensembl supported organisms which affected
also my package metaseqR. One solution is to change the host in the useMart
function (assuming the use of biomaRt to query Ensembl) to point to older
Ensembl archives.
Panagiotis
???? 17 ??? 2014 4:52 ?.?., ? ??????? "Martin, Tiphaine" <
tiphaine.martin at kcl.ac.uk> ??????:
> Hi Everybody,
>
>
> Yesterday, I observed that ENSEMBL changed a little their schema of the
> dataset "hsapiens_gene_ensembl".
>
> In my case, some of my functions were impacted by the change from
> "external_gene_id" to
>
> "external_gene_name".
>
>
> Maybe there are other change in this dataset or other datasets.
>
>
> Regards,
>
> Tiphaine
>
> [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioc-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
[[alternative HTML version deleted]]