rikenbit/FUCHIKOMA: Revealing differentially expressed genes using nonlinear dimensionality reduction for single cell RNA-Seq data
fuchikoma detects differentially expressed genes (DEGs) in one of multiple clusters. To detect DEGs, fuchikoma has two calculation mode; "supervised-mode" and "unsupervised-mode". In supervised-mode, fuchikoma detects DEGs by using a label vector, in which the cluster of each sample or cell is written. In unsupervised-mode, fuchikoma detects DEGs without the label vector. In this mode, user run the diffusion map, and specify which diffusion components contribute to the difference of such cluster.
Getting started
Browse package contents
Package details |
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| Author | Koki Tsuyuzaki, Haruka Ozaki, Mika Yoshimura, Itoshi Nikaido |
| Bioconductor views | Bioinformatics Clustering DifferentialExpression HighThroughputSequencing MultipleComparisons RNAseq Sequencing Software |
| Maintainer | Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp> |
| License | Artistic-2.0 |
| Version | 0.0.24 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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