Hi Aaron and Martin,
In any case, a distance matrix calculated from such an array would be fine, as
long as the dimensions are equal to the number of cells. The question is
whether it is needed by enough packages to warrant a slot in the base SCE
class; I will discuss this with Davide and
On 08/08/2017 03:59 AM, Angerer, Philipp wrote:
Hi Aaron,
I guess this would be a question for the SummarizedExperiment developers,
though personally, I never liked ExpressionSet's inclination to slap names on
everything.
Too bad we’re bound to SummarizedExperiment’s “rows” and “cols”.
> I guess this would be a question for the
> SummarizedExperiment developers, though personally, I never liked
> ExpressionSet's inclination to slap names on everything.
>
> Too bad we’re bound to SummarizedExperiment’s “rows” and “cols”. Since
> they always refer to features and
On 08/08/2017 03:59 AM, Angerer, Philipp wrote:
Hi Aaron,
I guess this would be a question for the SummarizedExperiment developers,
though personally, I never liked ExpressionSet's inclination to slap names on
everything.
Too bad we’re bound to SummarizedExperiment’s “rows” and “cols”.
Hi Aaron,
I guess this would be a question for the SummarizedExperiment developers,
though personally, I never liked ExpressionSet's inclination to slap names on
everything.
Too bad we’re bound to SummarizedExperiment’s “rows” and “cols”. Since they
always refer to features and
long as
any relevant statistics can be extracted and stored in the SCE object
when it moves to the next stage of the workflow.
-Aaron
> --------
> *Von: *"Aaron Lun" <a...@wehi.edu.au>
> *An: *&q
as plot(a_dm_object) → plot_dm(a_sce_object) .
Cheers, Philipp
Von: "Aaron Lun" <a...@wehi.edu.au>
An: "bioc-devel" <bioc-devel@r-project.org>
Gesendet: Montag, 31. Juli 2017 10:38:03
Betreff: Re: [Bioc-devel] transitioning scater/scran to SingleCellExperimen
Dear developers,
Both scater and scran will be migrating to the SingleCellExperiment
class (https://bioconductor.org/packages/SingleCellExperiment) in the
next BioC release. This is based on a SummarizedExperiment and provides
a more modern user interface, as well as supporting different matrix
