Let's say I have a vector of gene IDs where some are NA, and are some are
repeated, and I want to map them to gene symbols, where I get NAs for the
NA IDs or IDs without a symbol. What is the best way to do this?
I tried select() but it gave me a table with unique entries; not very
convenient. It
hi Michael,
this souns like if you had a list of variants where you have annotated
their Entrez Gene IDs, which sometimes are NA because those variance do
not overlap any gene and sometimes are repeated Entrez Gene IDs when two
or more of those variants overlap the same gene :)
at least is
Wow, VariantFiltering is awesome. It's impressive how it integrates all of
the annotation resources so seamlessly. And the shiny app looks very
useful. This should be a model package for where we want to bring
Bioconductor.
You should look into using VRanges instead of GRanges for the return
hi, thanks of the compliments to the package, i'm happy to hear you
liked it! i must acknowledge that part of the design of the package is
the result of conversations i had with Martin, Marc and specially
Valerie during the review process.
i only got to know about VRanges once the package was
Hi Michael,
On 06/18/2014 06:03 AM, Michael Lawrence wrote:
Let's say I have a vector of gene IDs where some are NA, and are some are
repeated, and I want to map them to gene symbols, where I get NAs for the
NA IDs or IDs without a symbol. What is the best way to do this?
I tried select() but
That is a good start. But for convenience, I would favor something that
just returns the vector corresponding to column rather than a data.frame.
Thanks,
Michael
On Wed, Jun 18, 2014 at 10:11 AM, Hervé Pagès hpa...@fhcrc.org wrote:
Hi Michael,
On 06/18/2014 06:03 AM, Michael Lawrence
Seconded, this would be so useful. I still use mget() for heavens sake.
Meanwhile I'm going to try VariantFiltering. Thanks for starting this
conversation Michael.
--t
On Jun 18, 2014, at 11:18 AM, Michael Lawrence lawrence.mich...@gene.com
wrote:
That is a good start. But for
