Yes, I think so.
On Tue, 21 Sept 2021 at 15:53, Shraddha Pai
wrote:
> Hi Zugang,
> Thanks for the tip on pkgndep - very helpful visualization. If I
> understand correctly, rows in the matrix are sorted by number of dependency
> packages loaded by a package required by netDx. Can see the long
Hi Giulia,
I think it is ok to host the vignettes somewhere else. I have two packages
of which the vignettes are hosted on GitHub Page.
http://www.bioconductor.org/packages/devel/bioc/html/ComplexHeatmap.html
https://www.bioconductor.org/packages/devel/bioc/html/cola.html
But since now the
,
Zuguang Gu
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ated during `R CMD check`.
Best regards,
Zuguang
On Thu, 23 Sept 2021 at 20:49, Hervé Pagès
wrote:
> Hi Zuguang,
>
> On 23/09/2021 05:45, Zuguang Gu wrote:
> > Hi Giulia,
> >
> > I think it is ok to host the vignettes somewhere else. I have two
> packages
&
Hi Bioc,
The YAPSA package failed on the release branch:
** installing vignettes
Warning in file(con, "w") :
cannot open file
'F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-YAPSA/00new/YAPSA/doc/index.html':
No such file or directory
Error in file(con, "w") : cannot open the connection
ERROR:
An alternative way is to first set `setRepositories(ind = 1:4)`. This will
add Bioconductor repos to the default repos in your R session.
Then you can use `install.packages()` instead of `BiocManager::install()`.
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The devel version of DOSE depends on MPO.db.
I also found MoonlightR depends on DOSE only on its two functions: gseDO()
and simplot().
An analysis by the pkgndep package shows if you can reduce the dependency
on both clusterProfiler and DOSE, a total of 46 upstream dependencies will
be reduced
n this one. I just want
to send a kind reminder here. I am not in a hurry. I just wish the package
can be included in the next Bioc release.
Thanks and best regards,
Zuguang Gu
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Hi Bioc-devel,
I recently analyzed a methylation array dataset which is from EPIC array
v2.0 (
https://www.illumina.com/products/by-type/microarray-kits/infinium-methylation-epic.html)
and currently there is no manifest nor annotation packages for that one.
The available packages on Bioconductor
t;
> Cheers,
>
>
> Lori Shepherd - Kern
>
> Bioconductor Core Team
>
> Roswell Park Comprehensive Cancer Center
>
> Department of Biostatistics & Bioinformatics
>
> Elm & Carlton Streets
>
> Buffalo, New York 14263
>
of YAPSA.
My email address is z...@dkfz.de
Thanks!
Zuguang Gu
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You can use
https://hgdownload2.soe.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz
https://hgdownload.soe.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz
instead.
On Thu, 8 Feb 2024 at 20:03, Martin, Tiphaine via Bioc-devel <
bioc-devel@r-project.org> wrote:
> Hi,
>
> I have an error in
I saw MatrixExtra defines several S4 methods/dispatches for the generic
`crossprod()` which is actually defined in base.
Maybe you can import the whole MatrixExtra namespace?
import(MatrixExtra)
On Tue, 16 Jan 2024 at 16:14, Zhigang Li wrote:
> Hi There,
>
> It seems that the error says :
>
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