pathway_analysis: hypergeometric test for RNA-seq
In jiangyuan2li/quickpath: Quick Pathway Analysis

hypergeometric test for RNA-seq

1	pathway_analysis(sig.genes, class = c("mmu", "hsa", "gga"), mc.cores = 8)

`sig.genes`	A vector of significantly changed genes
`class`	Specify which type of gene
`mc.cores`	Specify how many cores to use

A list of all significantly changed pathways, and all pathways with p value

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deg = grab_deg_from_cuffdiff(gene_exp.diff)
sig.genes = deg$external_gene_name
path_res = pathway_analysis(sig.genes, class = "mmu")

jiangyuan2li/quickpath documentation built on Dec. 8, 2019, 4:05 p.m.

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