VAMF is a probabilistic dimension reduction method for single cell RNA-Seq datasets. For details see the biorxiv preprint. VAMF is also implemented as an R package.
- algs- implementations of the VAMF algorithm as well as wrapper functions for competing methods.
- final_figs- intermediate data and code for generating the figures used in the paper itself.
- patel_2014, shalek_2013, trapnell_2014- code for processing the data used in the three studies. For the former, see also the data package
- simulations- code for the noise only and latent clusters scenarios. Start with
alg_tests.Rmdthensensitivity.Rmd
- Primary developer: Will Townes
- Collaborators: Martin Aryee, Stephanie Hicks, Rafael Irizarry