nmf_extract_feature: Extract features from NMF run results

In naikai/sake: Single-cell RNA-Seq Analysis and Klustering Evaluation

Extract features from NMF run results

Description

X = W x H W is the feature matrix, H is the sample matrix After NMF run, use this function to select import features and assign groups for the two matrix

Usage

nmf_extract_feature(res, rawdata = NULL, manual.num = 0,
  method = "default", math = "mad", FScutoff = 0.9)

Arguments

res	NMF run results
rawdata	Original expression matrix, if we want to rank the genes by 'MAD' value across samples
manual.num	How many genes to select from each of the group
method	'total', 'default', or 'rank'
math	Default is 'mad': median absolute deviation

Examples

nmf_extract_feature(nmf_res)

naikai/sake documentation built on Feb. 15, 2023, 11 p.m.