Hi Michael,
On 12/13/2013 06:39 PM, Michael Lawrence wrote:
Coercion might suffice. I do remember Patrick optimizing these
selections with e.g. memcpy(), so they are pretty fast.
The memcpy() trick was used (and is still used in extractROWS) when
seqselect'ing by a Ranges object. For subsettin
Coercion might suffice. I do remember Patrick optimizing these selections
with e.g. memcpy(), so they are pretty fast. No profiling data though. I do
have some performance critical code that has relied on the Rle-based
extraction. Would be nice to avoid re-evaluating the performance.
On Fri, Dec
On 12/13/2013 01:49 PM, Michael Lawrence wrote:
Thanks, makes sense. Didn't realize we could dispatch on the 'i'
parameter. I sort of recall the perception that we couldn't, and that
was one of the main motivations behind seqselect. But it does appear
possible.
Well I was hoping I could do this
Thanks, makes sense. Didn't realize we could dispatch on the 'i' parameter.
I sort of recall the perception that we couldn't, and that was one of the
main motivations behind seqselect. But it does appear possible.
Michael
On Fri, Dec 13, 2013 at 1:10 PM, Hervé Pagès wrote:
> Hi Michael,
>
>
>
Hi Michael,
On 12/13/2013 01:03 PM, Michael Lawrence wrote:
I used to use seqselect for subsetting ordinary R vectors by Ranges and
Rle. IRanges:::extractROWS does this, but it's hidden behind the namespace.
What is the public way of doing this?
Maybe we just need to export extractROWS()? Or so
I used to use seqselect for subsetting ordinary R vectors by Ranges and
Rle. IRanges:::extractROWS does this, but it's hidden behind the namespace.
What is the public way of doing this?
Maybe we just need to export extractROWS()? Or something with a better name?
Michael
[[alternative HTM
Hi Herve,
Thanks for your reply.
I updated my R to yesterday's building and it works great. Looks like it
is the problem of my old version of R 3.10.
Yours sincerely,
Jianhong Ou
LRB 670A
Program in Gene Function and Expression
364 Plantation Street Worcester,
MA 01605
On 12/13/13 2:50 PM
Hi Jianhong,
On 12/13/2013 11:45 AM, Ou, Jianhong wrote:
Dear all,
When I try to renew Rsamtools, GenomicAlignments and rtracklayer, I got error
Error : objects ‘GAlignments’, ‘GAlignmentPairs’ are not exported by
'namespace:GenomicRanges'
You didn't show us what you did exactly.
Try to do
Dear all,
When I try to renew Rsamtools, GenomicAlignments and rtracklayer, I got error
Error : objects GAlignments, GAlignmentPairs are not exported by
'namespace:GenomicRanges'
Does anybody know how to figure out this problem?
> biocValid()
* sessionInfo()
R Under development (unstable
Hi tag,
The data-experiment repository doesn't use a trunk/branch organization
like the software repo, so the devel and release builds both point to
trunk. You can see this in the "svn info" box ("URL" field) at the top
of the HTML reports:
http://bioconductor.org/checkResults/2.14/data-experi
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