calc_fisher: Perform Fisher's exact test
In frhl/genoppi-v4: genoppi

Use one-tailed Fisher's exact test to calcualte overlap enrichment between proteomic data and other datasets (e.g. InWeb, gene lists, etc.)

1	calc_fisher(df, listDf, intersectDf, bait = NULL)

`df`	data.frame containing proteomic data, with gene and significant columns
`listDf`	data.frame containing data to overlap, with listName, gene and significant columns
`intersectDf`	data.frame contaning listName and intersectN columnsl intersectN = vector of boolean variables indicating if total population should be intersect of the two datasets
`bait`	name of bait protein

list of data.frame and list. Data.frame contains list_name, overlap_count, dfOnly_count, listOnly_count, neither_count, population_count, pvalue. List of lists (for each listName) contains genes names corresponding to each group (overlap_genes, dfOnly_genes, listOnly_genes, neither_genes, population_genes).

frhl/genoppi-v4 documentation built on May 5, 2020, 7:16 a.m.