process_input_seurat: Extract differentially expressed genes from Seurat object
In lilin-yang/glacier: Gene List Annotation, Calculation and Illustration of Enrichment in R

Finds differentially expressed genes, records adjusted P-value and filters for values less than max_p.

1	process_input_seurat(seurat, clst_1, clst_2 = NULL, max_p = 0.05)

`seurat`	Seurat object
`clst_1`	first cluster
`clst_2`	optional: second cluster; default all others
`max_p`	P-value cutoff, only genes with P-values less than this will be returned

tibble: "gene" gene names "value" gene values

seu_path <- system.file("extdata", "ex_seurat.rds", package = "glacier")
seurat <- readRDS(seu_path)

input <- process_input_seurat(seurat, 0)

lilin-yang/glacier documentation built on Oct. 3, 2020, 8:06 a.m.

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