sigp: Significance for first split using sigclust2

In scpoisson: Single Cell Poisson Probability Paradigm

Significance for first split using sigclust2

Description

This function returns a list with elements mainly generated from sigclust2.

Usage

sigp(test_dat, minSize = 10, sim = 100)

Arguments

test_dat	A UMI count data matrix with samples to cluster as rows and features as columns.
minSize	A numeric value specifying the minimal allowable cluster size (the number of cells for the smallest cluster, default 10).
sim	A numeric value specifying the number of simulations during the Monte Carlo simulation procedure (default 100).

Details

This is a function used to calculate the significance level of the first split from hierarchical clustering based on euclidean distance and Ward's linkage.

Value

A list with the following elements:

• p: p-value for the first split

• z: z-score for the first split

• shc_result: a shc S3-object as defined in sigclust2 package

• clust2: a vector with group index for each cell

• clust_dat: a matrix of data representation used as input for hierarchical clustering

References

\insertRef

kimes2017statisticalscpoisson \insertRefRclusterppscpoisson

scpoisson documentation built on Aug. 17, 2022, 9:05 a.m.