Hi,
On 5/21/24 01:58, Vilhelm Suksi wrote:
> Hi!
>
> Excuse the long email, but there are a number of things to be clarified in
> preparation for submitting the notame package which I have been developing to
> meet Bioconductor guidelines. As of now it passes almost all of the automatic
>
Hi Bioc-devel,
As some of you are aware, rtracklayer::import() has long provided
access to import BigWig files. Those files can be shared on servers
and accessed remotely thanks to all the effort from many of you in
building and maintaining rtracklayer.
>From my side, derfinder::loadCoverage()
If you have many sequences to download, it can be very slow if you use
Uniprot.ws to query the database. I used a walk-around method to download the
proteome of a species using FTP in my dagLogo package:
https://github.com/jianhong/dagLogo/blob/devel/R/prepareProteomeByFTP.R.
Haibo
Thank you Haibo and Vincent : )
Yes, UniProt.ws is certainly there and did serve me well earlier.
There are times when an offline solution is needed, when operations
are done on larger sets.
Followed my habit to check first whether a relevant AnnotationHub
record exists.
Given the absence of
We use Uniprot.ws to access the Uniprot data on demand:
https://bioconductor.org/packages/release/bioc/html/UniProt.ws.html.
Haibo
-Original Message-
From: Bioc-devel On Behalf Of Vincent Carey
Sent: Tuesday, May 21, 2024 7:02 AM
To: aditya.bhag...@uni-marburg.de
Cc:
On Tue, May 21, 2024 at 4:18 AM Aditya Bhagwat via Bioc-devel <
bioc-devel@r-project.org> wrote:
> Hey guys,
>
> Do we have Uniprot sequences in AnnotationHub ?
>
That does not seem practical.
Please see
Hi!
Excuse the long email, but there are a number of things to be clarified in
preparation for submitting the notame package which I have been developing to
meet Bioconductor guidelines. As of now it passes almost all of the automatic
checks, with the exception of formatting and some functions
Hey guys,
Do we have Uniprot sequences in AnnotationHub ?
Not being able to find them.
Thankyouverymuch : )
Aditya
--
Aditya Bhagwat
Translational Proteomics ∙ Philipps-University Marburg
Biological Pharmacological Center ∙ Room A406
Tel.: +49 6421 28 27403
