result.pca.MARS: The result of PCA against MARS-Seq data

In rikenbit/fuchikoma: Revealing differentially expressed genes using nonlinear dimensionality reduction for single cell RNA-Seq data

Description

The result of pca against MARS.

The data has four different cell types; B cells (B1-B48), Dendritic cells (DC1-DC89), Monocytes (Mono1-Mono46), and Natural Killer cells (NK1-NK45).

Usage

data(result.pca.MARS)

Author(s)

Koki Tsuyuzaki, Haruka Ozaki, Mika Yoshimura, Itoshi Nikaido

Maintainer: Koki Tsuyuzaki <[e-mail]>

Source

https://www.sciencemag.org/content/343/6172/776?related-urls=yes&legid=sci;343/6172/776

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE54006

References

Diego Adhemar Jaitin, Ephraim Kenigsberg, Hadas Keren-Shaul, Naama Elefant, Franziska Paul, Irina Zaretsky, Alexander Mildner, Nadav Cohen, Steffen Jung, Amos Tanay, Ido Amit (2014) Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types. Science, 343 (6172): 776-779

Examples

data(MARS)
data(label.MARS)
data(result.pca.MARS)
data(result.tsne.MARS)
data(result.dmap.MARS)
pairs(result.pca.MARS, col=label.MARS, main="MARS-Seq (PCA)", pch=16)
plot(result.tsne.MARS, col=label.MARS, main="MARS-Seq (t-SNE)", pch=16)
pairs(result.dmap.MARS, col=label.MARS, main="MARS-Seq (Diffusion Map)", pch=16)

rikenbit/fuchikoma documentation built on May 27, 2019, 9:09 a.m.