[BioC] Protein position to genomic location

[Laurent Gatto]

Dear Dave, 

The mapping vignette [1] (in particular the Calculating new coordinates
section) from the Pbase package describes what you need, I believe.

Best wishes,

Laurent

[1] http://bioconductor.org/packages/devel/bioc/vignettes/Pbase/inst/doc/mapping.html

> Hello,
> I have a list of several hundred amino acid change and would like to
> locate the genomic location for each of them.  I also have the
> transcript ID the amino acid position correspond to.  I was wondering if
> this is possible using GenomicFeatures package?  I guess this query is
> the opposite way that to most annotations for which there is a lot of
> documentation and tools.
> 
> Thanks,
> Dave
> 
>  -- output of sessionInfo(): 
> 
> R version 3.0.3 (2014-03-06)
> Platform: x86_64-apple-darwin10.8.0 (64-bit)
> 
> locale:
> [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base     
>  
> 
> --
> Sent via the guest posting facility at bioconductor.org.


-- 
Laurent Gatto
http://cpu.sysbiol.cam.ac.uk/