; this issue.
> --
> *From:* Bioc-devel on behalf of Pages,
> Herve
> *Sent:* Thursday, April 25, 2019 9:19:35 PM
> *To:* Aaron Lun; Vincent Carey
> *Cc:* Bioc-devel; jmac...@u.washington.edu
> *Subject:* Re: [Bioc-devel] Weird monkey identifiers in org.Hs.eg.db
>
>
___
From: Bioc-devel
<mailto:bioc-devel-boun...@r-project.org> on
behalf of James
W. MacDonald <mailto:jmac...@uw.edu>
Sent: Tuesday, April 23, 2019 11:03:02 AM
To: Aaron Lun
Cc: Bioc-devel
Subject: Re: [Bioc-devel] Weird monkey identifiers in org.Hs.eg.db
Looks like the ensembl
boun...@r-project.org> on
behalf of James
W. MacDonald <mailto:jmac...@uw.edu>
Sent: Tuesday, April 23, 2019 11:03:02 AM
To: Aaron Lun
Cc: Bioc-devel
Subject: Re: [Bioc-devel] Weird monkey identifiers in org.Hs.eg.db
Looks like the ensembl table of the human.db0 package got polluted with
*
ying this issue and I will try to have some fixes out asap.
>
>
> From: Bioc-devel on behalf of James W.
> MacDonald
> Sent: Tuesday, April 23, 2019 11:03:02 AM
> To: Aaron Lun
> Cc: Bioc-devel
> Subject: Re: [Bioc-devel] Weird monkey ide
Sent: Tuesday, April 23, 2019 11:03:02 AM
To: Aaron Lun
Cc: Bioc-devel
Subject: Re: [Bioc-devel] Weird monkey identifiers in org.Hs.eg.db
Looks like the ensembl table of the human.db0 package got polluted with *Pan
troglodytes* genes:
> con <- dbConnect(SQLite(),
"/R-devel/lib64/R/librar
Looks like the ensembl table of the human.db0 package got polluted with *Pan
troglodytes* genes:
> con <- dbConnect(SQLite(),
"/R-devel/lib64/R/library/human.db0/extdata/chipsrc_human.sqlite")
> dbGetQuery(con, "select count(*) from ensembl where ensid like
'ENSPTR%';")
count(*)
116207
>
Playing around with org.Hs.eg.db 3.8.0. What on earth is ENSPTRG...?
> library(org.Hs.eg.db)
> mapIds(org.Hs.eg.db, key="GCG", keytype="SYMBOL", column="ENSEMBL")
'select()' returned 1:many mapping between keys and columns
GCG
"ENSPTRG777"
Well, at least it still
