Search Archives
Search tips
from:Name
Search by author name, e.g. from:Duncan Murdoch
"exact phrase"
Match an exact phrase
word1 word2
Match messages containing both words
Date range
Use the date pickers to filter results to a time period
Use the list dropdown to narrow results to a specific mailing list. Combine from: with other terms to filter by author and content.
Hi, I tried submitting a poster by the Bioconductor conference deadline about 10 minutes ago, but it says the application window is closed. Could I email the poster for consideration in some other way? Thanks, Bohdan -- <https://about.me/bohdankhomtchouk...
library(GEOmetadb) if(!file.exists('GEOmetadb.sqlite')) getSQLiteFile() con <- dbConnect(SQLite(),'GEOmetadb.sqlite') dbListFields(con,'gse') ## [1] "ID" "title" ## [3] "gse" "status" ## [5] "submission_date" "last_update_date" ## [7] "pubmed_id" "summary" ## [9] "type" "contributor" ## [11] "web_link" "overall_design...
Hi -- I recently diagnosed a WARNING that kept popping up in my package's build by following the advice of: https://stackoverflow.com/a/42673584/3878253 Since I wasn't the only one who benefited from this answer, I thought...
I need to include an important .rda file in the /data folder of my Bioconductor package. However, this .rda file exceeds 5 Mb in size. Do I have any other options besides for deleting it? bohdankhomtchouk$ git push origin master...
I'm following the steps recommended at https://bioconductor.org/developers/how-to/git/sync-existing-repositories/ but getting an unexpected error: bohdankhomtchouk$ git merge upstream/master merge: upstream/master - not something we can merge I just updated https://git...
Looks like that was the issue, thanks Vincent & Martin! > hub = AnnotationHub() snapshotDate(): 2018-08-20 > isDevel() [1] TRUE > query(hub, "Mus_musculus.GRCm38.93.chr.gtf") AnnotationHub with 1 record # snapshotDate(): 2018-08-20 # names(): AH63797 # $dataprovider: Ensembl # $species: Mus...
Here it is: https://github.com/Bohdan-Khomtchouk/geneXtendeR/blob/master/data/mouse.rda On Tue, Sep 25, 2018 at 6:23 PM Vincent Carey <stvjc at channing.harvard.edu> wrote: > (resending with reply all -- please reply to this one...
To generate mouse.rda, I used: library(rtracklayer) mouse <- readGFF(" ftp://ftp.ensembl.org/pub/release-93/gtf/mus_musculus/Mus_musculus.GRCm38.93.chr.gtf.gz ") And then I saved the object as mouse.rda On Tue, Sep 25...
Just did, same result: > hub = AnnotationHub() snapshotDate(): 2018-04-30 I re-installed AnnotationHub package as well. On Wed, Sep 26, 2018 at 1:16 PM Vincent Carey <stvjc at channing.harvard.edu> wrote: > your annotation hub is out of...
Martin, I don't see it unfortunately: > query(hub, "Mus_musculus.GRCm38.93.chr.gtf") AnnotationHub with 0 records # snapshotDate(): 2018-04-30 But perhaps it needs to be added to AnnotationHub, because I see other .chr.gtf files that...
Can't find what you're looking for? Try searching with Google .