It’s not there yet, but I plan to expose a C++ API for my disk-backed matrix
objects in the next version of my ‘matter’ package.
It’s getting easier to interchange matter/HDF5Array/bigmemory/etc. objects at
the R level, especially if using a frontend like DelayedArray on top of them,
but it wou
On Fri, Feb 24, 2017 at 1:26 PM, Aaron Lun wrote:
> Hi everyone,
>
>
> I was thinking of something that you could supply any supported matrix
> representation to a registered function via .Call; the C++ constructor
> would recognise the type of matrix during class instantiation; and
> operations
Yes, I think double-precision would be necessary for general use. Only the raw
count data would be integer, and even then that's not guaranteed (e.g., if
people are using kallisto or salmon for quantification).
-Aaron
From: Vincent Carey
Sent: Saturday, 25 Fe
What is the data type for an expression value? Is it assumed that double
precision will be needed?
On Fri, Feb 24, 2017 at 4:50 PM, Aaron Lun wrote:
> It's a good place to start, though it would be very handy to have a C(++)
> API that can be linked against. I'm not sure how much work that woul
It's a good place to start, though it would be very handy to have a C(++) API
that can be linked against. I'm not sure how much work that would entail but it
would give downstream developers a lot more options. Sort of like how we can
link to Rhtslib, which speeds up a lot of BAM file processing
yes
the DelayedArray framework that handles HDF5Array, etc. seems like the
right choice?
--t
On Fri, Feb 24, 2017 at 1:26 PM, Aaron Lun wrote:
> Hi everyone,
>
> I just attended the Human Cell Atlas meeting in Stanford, and people were
> talking about gene expression matrices for >1 million ce
Hi everyone,
I just attended the Human Cell Atlas meeting in Stanford, and people were
talking about gene expression matrices for >1 million cells. If we assume that
we can get non-zero expression profiles for ~5000 genes, we�d be talking about
a 5000 x 1 million matrix for the raw count data.
Hi Elena,
Could you tell me more about which package you are trying to wrap a recipe
for? And could you give me an example for what you mean by " determining
dependencies limits when one of the packages that you depend on changes its
public interface." ?
Best,
Nitesh
On Fri, 24 Feb 2017 at 10:3
I am trying to ease Bioconda recipes writers for Bioconductor packages.
The issue at hand is determining dependencies limits when one of the
packages that you depend on changes its public interface.
Up to now I admit that I did not fix my packages deps (adding a pin to a >=
version of them) when t
