Hi
I've been put in charge of trying to clean up a package produced in my lab
into bioconductor compatible code.
The package consists of a a few functions (which process annotation,
process bam files, and then create a html report, respectively). Each of
these functions necessarily take a long time aas they have to traverse a
bam file several times, create lots of plots etc.
It's proving extremely difficult, even with subsets of the data, to create
a vignette which can be run in the the bioconductor standard 10minutes.
What would you recommend in these circumstances? Is it possible for the
package to have a workflow vignette instead of a standard vignette?
Best
Dermot Harnett, PhD
Ohler Group
BIMSB, Berlin
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