[Bioc-devel] biocViews - Spatial

Kern, Lori Lor|@Shepherd @end|ng |rom Ro@we||P@rk@org
Fri Jul 30 15:47:55 CEST 2021

I think this is an acceptable proposal.  I will look at adding the biocViews to the devel version of Bioconductor for use.  They should be available for use by early next week once the new version of the biocViews packages builds and propagates on the build system.


Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Lukas Weber <lukas.weber.edu using gmail.com>
Sent: Thursday, July 29, 2021 3:29 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Cc: Stephanie Hicks <shicks19 using jhu.edu>
Subject: [Bioc-devel] biocViews - Spatial


I have a question about biocViews. Currently we are including packages for
spatially resolved transcriptomics analysis in the SingleCell (and
SingleCellData / SingleCellWorkflow) biocViews.

Would it be possible to add a new biocViews for spatial data? We are likely
to see a lot of new packages in this area in the coming years, so it could
be useful to split them out from SingleCell.

And if so, should we call it Spatial or SpatialTranscriptomics? (e.g. maybe
having a more general Spatial would be better since this could also include
spatial proteomics)

So then I would imagine the following new biocViews, mirroring the current
ones for SingleCell:
- Spatial
- SpatialData
- SpatialWorkflow

Do others have any views on this?

Best regards,

Lukas M. Weber, Ph.D.
Postdoctoral Fellow
Department of Biostatistics
Johns Hopkins Bloomberg School of Public Health

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