calc_fisher: Perform Fisher's exact test
In lagelab/Genoppi: genoppi
calc_fisher R Documentation
Perform Fisher's exact test
Description
Use one-tailed Fisher's exact test to calcualte overlap enrichment between proteomic data and other datasets (e.g. InWeb, gene lists, etc.)
Usage
calc_fisher(df, listDf, intersectDf, bait = NULL)
Arguments
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
Value
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).
lagelab/Genoppi documentation built on Oct. 13, 2022, 2:36 p.m.
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| calc_fisher | R Documentation |
Perform Fisher's exact test
Description
Use one-tailed Fisher's exact test to calcualte overlap enrichment between proteomic data and other datasets (e.g. InWeb, gene lists, etc.)
Usage
calc_fisher(df, listDf, intersectDf, bait = NULL)
Arguments
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 |
Value
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).
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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