Ops, ok, thanks. Should have reread the documentation.
Thanks
Bernat
El 01/10/2018 a las 2:00, Dario Strbenac escribió:
> Good day,
>
> The import of BigWig files does not work on Windows and is documented.
> Execute ?BigWigFile-class and notice in the Description section: "These
> functions
Hi all,
I've submitted a new package (CopyNumberPlots, issue 1076) and I have a
problem. It keeps giving me a warning because on windows it takes more
than 5 minutes to check (in Lunix it works with no problems). I've
reduced the examples, removed part of the vignette... and in my machine
.@roswellpark.org>
Sent: Friday, April 5, 2019 10:40:07 AM
To: Bernat Gel Moreno; bioc-devel@r-project.org<mailto:bioc-devel@r-project.org>
Subject: Re: [Bioc-devel] Timeout in check for a new submission
If the check time is passing on the other platforms, and the windows check
isn't incr
Hi,
I assume you are already aware of it, but there's a problem with the builder
for the new packages. It works fine in Windows but Mac and Linux cannot access
CRAN
checking package dependencies ...Warning: unable to access index for repository
https://CRAN.R-project.org/src/contrib:
cannot
Hi all,
Is there any standard recommended container for genomic structural
variants? I think InteractionSet would work fine for translocation and
GRanges for inversions and copy number changes, but I don't know what
would be the recommended way to store them all together using standard
p
> them in one object, just lump them into a List with "translocation"
> (GInteractions), "cnv" (GRanges) and "inversion" (another GRanges)
> elements, and people/programs can pull out bits and pieces as needed.
>
> -A
>
>
> On 5/17/19 4
Hi all,
I'm the developer of karyoploteR.
@Michael: I never though about using seqinfo as the source for the
genome information. I'll add this as an option to define the genome.
Thanks for the suggestion.
@Aditya: If you want to plot just your relevant chromosomes, you don't
need to alter
) and retrieve the cytobands for the genome. Or you can specify
the exact chromosomes you want to plot. I think this should help with
the specific question at hand.
Bernat
El 9/12/19 a las 10:09 AM, Bernat Gel Moreno escribió:
> Oh, and Aditya, take into account taht if you give karyoploteR a cus
selecting the chromosomes to plot using "chromosomes".
Bernat
El 9/12/19 a las 8:47 AM, Bernat Gel Moreno escribió:
> Hi all,
>
> I'm the developer of karyoploteR.
>
> @Michael: I never though about using seqinfo as the source for the
> genome information. I'll add
Hi,
For one of our packages (CopyNumberPlots) we'll need to read 10X CNV
data in H5 format. I've read in everything I need except for the cell
clustering tree. It's in a format called Z format produced by SciPy
hierarchical clustering. The format itself is relatively easy to parse
and not so
ou may even
> be able to re-write it directly in R.
>
> Peter
>
> On Tue, Jul 30, 2019 at 12:39 AM Bernat Gel Moreno wrote:
>> Hi,
>>
>> For one of our packages (CopyNumberPlots) we'll need to read 10X CNV
>> data in H5 format. I've read in everything I need except fo
Hi Stefano,
Your message to the list was completely empty, thus the joke by Michael.
I think you'll have to resend your message to the list and check it
arrives as expected so you can get some feedback! :)
Bernat
El 2/6/20 a las 12:29 PM, stefano escribió:
> Hello,
>
> Happy to trigger good
Hi,
I'm no way related to the DESEq2 package. Its author is Mike Love. Te best way
is to ask your questions in the bioconductor support site.
https://support.bioconductor.org/
Bernat
De: Bioc-devel de part de Claudio A Bravo
Enviat el: dimarts, 24 de gener
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