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drisso / zinbwave

Clone of the Bioconductor repository for the zinbwave package, see https://bioconductor.org/packages/zinbwave
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So very slow, could you develop speed-ups using, e.g., Rcpp? #37

Closed chriscainx closed 6 years ago

chriscainx commented 6 years ago

https://sheffieldr.github.io/assets/slides/2017-05-speed_up_r_with_cpp-theo-michelot.pdf This could be useful :)

chriscainx commented 6 years ago

https://github.com/fditraglia/econ722/blob/7b2cf6b54111144ad3786bad3e4d16f7cadbcf41/RcppArmadillo/ridge.cpp

drisso commented 6 years ago

Yes, I'm aware of Rcpp.

I'm not sure how much faster it will be (optim is in C), but it's certainly something that we could look into (among other things).

If you're so frustrated by the speed, PR's are welcome... unfortunately, I don't do this as a full time job...

Also, note that the main problem with large datasets is not so much speed, but memory.