[Bioc-devel] Bioconductor's GIT transition

2017-03-03 Thread Turaga, Nitesh
Dear Bioconductor Developers, Big news! We are planning to migrate from SVN to git. This is a major change in our version control model. We understand this may be disruptive to some developers and are working to make the transition as smooth as possible. The end goal is to provide a

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-03 Thread Kasper Daniel Hansen
On Fri, Mar 3, 2017 at 10:22 AM, Vincent Carey wrote: > > > On Fri, Mar 3, 2017 at 10:07 AM, Kasper Daniel Hansen < > kasperdanielhan...@gmail.com> wrote: > >> Some comment on Aaron's stuff >> >> One possibility for doing things like this is if your code can be done

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-03 Thread Vincent Carey
On Fri, Mar 3, 2017 at 10:07 AM, Kasper Daniel Hansen < kasperdanielhan...@gmail.com> wrote: > Some comment on Aaron's stuff > > One possibility for doing things like this is if your code can be done in > C++ using a subset of rows or columns. That can sometimes give the > necessary speed up.

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-03 Thread Kasper Daniel Hansen
Some comment on Aaron's stuff One possibility for doing things like this is if your code can be done in C++ using a subset of rows or columns. That can sometimes give the necessary speed up. What I mean is this Say you can safely process 1000 cells (not matrix cells, but biological cells, aka

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-03 Thread Vincent Carey
Kylie, thanks for reminding us of matter -- I saw you speak about this at the first Bioconductor Boston Meetup, but it went like lightning. For developers contemplating an approach to representing high-volume rectangular data, where there is no dominant legacy format, it is natural to wonder

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-03 Thread Wolfgang Huber
Dear Aaron Thank you. I think it's an important simplification of a potential API when you are saying that what you mostly need are accessors m[i, ] and m[, i] with i scalar or a short contiguous range, such that the value of that could be a relatively small ordinary matrix. (Compared to