Thanks Mike, we're having a look. I haven't found much comparative benchmarking data by prowling around your site ... am I missing anything? The colab notebook is helpful.
On Tue, Jun 1, 2021 at 5:07 AM Mike Lin <d...@mlin.net> wrote: > Dear all, > > I'm writing in hopes of recruiting an R/Bioconductor co-maintainer for > Genomics > Extension for SQLite <https://github.com/mlin/GenomicSQLite>, which adds > several key features to SQLite useful for bioinformatics data management; > for example: > > - streaming read/write compression layer > - querying compressed databases directly via web/cloud URLs > - Genomic Range Index for interval overlap queries > - in-SQL helper functions for manipulating sequences & identifiers > > I think this could eventually find use in many Bioconductor features, but > as a first step, we need the essential bindings package to load the > extension alongside RSQLite. I'm hoping somebody here might find the > project promising enough to chip into, as I don't get to use R much in my > own day-to-day anymore. > > The documentation site includes a section on writing language bindings > <https://mlin.github.io/GenomicSQLite/bindings/> that roadmaps the > necessary work, which I'd also be happy to work closely together on it. > Longer term, there are many possible applications to explore, and I also > anticipate presenting the work in suitable forums which I'd be happy to > share in. > > Please contact me if interested, on this github discussion > <https://github.com/mlin/GenomicSQLite/discussions/17>, by email > d...@mlin.net, or this thread. Alternatively, any feedback/ideas about how > to make the project useful are most welcome! > > Thanks, > Mike Lin <https://www.mlin.net> > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > -- The information in this e-mail is intended only for the ...{{dropped:18}} _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
