[Bioc-devel] workflow page reorganization
alun at wehi.edu.au
Fri Dec 15 16:55:09 CET 2017
Thanks Andrzej. And yes, I just put in a PR; I hope itemized sublists
for a particular workflow (i.e., mine) aren't too ambitious.
I'm thinking about whether "Epigenetics" is the right section heading.
For greatest generality, you could call it "Genome regulation", which
bundles all genomic binding/accessibility/methylation stuff together.
I was also pondering whether cytof belongs in Proteomics or Single-cell,
given the equivalent FACS workflow lives in Proteomics and the nature of
the data are fundamentally different from single cell genomics datasets.
But I suppose that's none of my business, I'll leave it to Lukas & co.
It would be nice to see an image analysis workflow up there!
On 15/12/17 15:27, Andrzej Oleś wrote:
> Hi Aaron,
> thank you for taking the lead. I've merged your suggested categories
> with my preliminary arrangement (which just went online). I've also
> included an index at the beginning of the page.
> Any refinements are of course welcome, e.g. via PR to
> On Fri, Dec 15, 2017 at 2:08 PM, Aaron Lun <alun at wehi.edu.au
> <mailto:alun at wehi.edu.au>> wrote:
> My proposed categories reflect my vested interests, but here goes:
> - Gene expression:
> - rnaseqGene
> - RNAseq123
> - ExpressionNormalizationWorkflow
> - RnaSeqGeneEdgeRQL
> - Epigenomics: (not quite sure what to call this)
> - chipseqDB
> - methylationArrayAnalysis
> - generegulation
> - Single cell:
> - simpleSingleCell
> - cytofWorkflow (or in proteomics?)
> - Proteomics:
> - proteomics
> - highthroughputassays
> - cytofWorkflow (see above)
> - Variant calling:
> - Variant calling
> - Nucleotide tallies
> - eQTL
> - Resource querying: (needs a better name)
> - recountWorkflow
> - TCGAWorkflow
> - Other:
> - everything else.
> I haven't looked at the Basic workflows, which are probably basic enough
> to be lumped together in that existing section.
> On 15/12/17 12:33, Shepherd, Lori wrote:
> > Hello all,
> > There has been a request to reorganize the workflow page as
> workflows have grown past basic and advanced.
> > http://bioconductor.org/help/workflows/
> > We wanted to check with the community what your thoughts were for
> > Thank you for your suggestions.
> > Lori Shepherd
> > Bioconductor Core Team
> > Roswell Park Cancer Institute
> > Department of Biostatistics & Bioinformatics
> > Elm & Carlton Streets
> > Buffalo, New York 14263
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