[Bioc-devel] AnnotationHub: uniprot seqs ?

[@dity@@bh@gw@t m@iii@g oii u@i-m@rburg@de]

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 that, I downloaded the relevant fastafile  
manually from UniProt.
Read it in with Biostrings and then took it from there.
Which is quite hassle-free, so yes, I can see that there is no need  
and not much value to pull it into AnnotationHub.
Thankyou for sharing your experience : )

Cheers,

Aditya




> 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 <bioc-devel-bounces using r-project.org> On Behalf Of  
> Vincent Carey
> Sent: Tuesday, May 21, 2024 7:02 AM
> To: aditya.bhagwat using uni-marburg.de
> Cc: bioc-devel using r-project.org
> Subject: Re: [Bioc-devel] AnnotationHub: uniprot seqs ?
>
> On Tue, May 21, 2024 at 4:18 AM Aditya Bhagwat via Bioc-devel <  
> bioc-devel using r-project.org> wrote:
>
>> Hey guys,
>>
>> Do we have Uniprot sequences in AnnotationHub ?
>>
>
> That does not seem practical.
>
> Please see
> https://bioconductor.org/packages/release/bioc/vignettes/UniProt.ws/inst/doc/UniProt.ws.html
>
> Let us know if that does not meet your need.
>
>
>> Not being able to find them.
>>
>
>
>
>>
>> Thankyouverymuch : )
>>
>> Aditya
>>
>> --
>> Aditya Bhagwat
>> Translational Proteomics ∙ Philipps-University Marburg
>>
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