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README.md
In phemd: Phenotypic EMD for comparison of single-cell samples
PhEMD - "Phenotypic Earth Mover's Distance"
PhEMD is a package for relating a network of single-cell samples. By first modeling the cell-state landscape of a model system and then computing pairwise distances between samples using EMD, PhEMD constructs a low-dimensional embedding that uncovers intrinsic manifold structure.
Installing PhEMD
PhEMD can currently be installed directly through Bioconductor as follows:
BiocManager::install("phemd")
Alternatively, the package can be cloned and installed directly from Git as below (although installation via Bioconductor is preferred).
git clone --recursive git://github.com/wschen/phemd.git
cd phemd
R CMD INSTALL .
Running PhEMD
See https://bioconductor.org/packages/release/bioc/vignettes/phemd/inst/doc/phemd.html for a step-by-step tutorial on applying PhEMD to a multi-sample single-cell dataset.
Try the phemd package in your browser
Any scripts or data that you put into this service are public.
phemd documentation built on Nov. 8, 2020, 8:15 p.m.
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PhEMD - "Phenotypic Earth Mover's Distance"
PhEMD is a package for relating a network of single-cell samples. By first modeling the cell-state landscape of a model system and then computing pairwise distances between samples using EMD, PhEMD constructs a low-dimensional embedding that uncovers intrinsic manifold structure.
Installing PhEMD
PhEMD can currently be installed directly through Bioconductor as follows:
BiocManager::install("phemd")
Alternatively, the package can be cloned and installed directly from Git as below (although installation via Bioconductor is preferred).
git clone --recursive git://github.com/wschen/phemd.git
cd phemd
R CMD INSTALL .
Running PhEMD
See https://bioconductor.org/packages/release/bioc/vignettes/phemd/inst/doc/phemd.html for a step-by-step tutorial on applying PhEMD to a multi-sample single-cell dataset.
Try the phemd package in your browser
Any scripts or data that you put into this service are public.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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