Rmagic

MAGIC - Markov Affinity-Based Graph Imputation of Cells

MAGIC (Markov affinity-based graph imputation of cells) is a method for addressing technical noise in single-cell data, including under-sampling of mRNA molecules, often termed "dropout" which can severely obscure important gene-gene relationships. MAGIC shares information across similar cells, via data diffusion, to denoise the cell count matrix and fill in missing transcripts. Read more: van Dijk et al. (2018) <DOI:10.1016/j.cell.2018.05.061>.

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Description file content

Package
Rmagic
Type
Package
Title
MAGIC - Markov Affinity-Based Graph Imputation of Cells
Version
1.3.0
Maintainer
Scott Gigante
Description
MAGIC (Markov affinity-based graph imputation of cells) is a method for addressing technical noise in single-cell data, including under-sampling of mRNA molecules, often termed "dropout" which can severely obscure important gene-gene relationships. MAGIC shares information across similar cells, via data diffusion, to denoise the cell count matrix and fill in missing transcripts. Read more: van Dijk et al. (2018) .
Depends
R (>= 3.3), Matrix (>= 1.2-0)
Imports
methods, stats, reticulate (>= 1.4), ggplot2
Suggests
readr, viridis, phateR
License
GPL-2 | file LICENSE
LazyData
true
RoxygenNote
6.1.0
Encoding
UTF-8
NeedsCompilation
no
Packaged
2018-09-21 21:54:43 UTC; scott
Author
David van Dijk [aut], Scott Gigante [cre] ()
Repository
CRAN
Date/Publication
2018-09-21 22:10:03 UTC

install.packages('Rmagic')

1.3.0

a day ago

Scott Gigante

GPL-2 | file LICENSE

Depends on

R (>= 3.3), Matrix (>= 1.2-0)

Imports

methods, stats, reticulate (>= 1.4), ggplot2

Suggests

readr, viridis, phateR

Discussions