pseudotime


The dataset contains a data.frame with two columns specifying pseudo-time calculated by Monocle. Note that only cells on the main path are retained. Cells belonging to the contaminated path are excluded. Please check HSMMSingleCell package for details.


Given single-cell RNA-seq data and true experiment time of cells or pseudo-time cell ordering, SEPA provides convenient functions for users to assign genes into different gene expression patterns such as constant, monotone increasing and increasing then decreasing. SEPA then performs GO enrichment analysis to analysis the functional roles of genes with same or similar patterns.

Zhicheng Ji

SEPA

pseudotime function

Format

<a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE52529">http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE52529</a>

Source

The dataset contains a data.frame with two columns specifying pseudo-time calculated by Monocle. Note that only cells on the main path are retained. Cells belonging to the contaminated path are excluded. Please check HSMMSingleCell package for details.

pseudotime: Pseudo-time Cell Ordering for HSMM Sinlge-cell RNA-seq data

Description

Arguments

Format

Source

References