logfc_cols: Calculating logFC between two columns of a dataframe

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Description

This function returns dataframe with 3 columns col1, col2, log2FC. Mind the column names order: the logFC is always calculated between the first anf the second input.

Usage

logfc_cols(data, col1, col2)

Arguments

data	dataframe with normalized counts
col1	name or number of the column in df
col2	name or number the column in df

Details

As an example, when this function is useful is lack of data. In order to find the differentially expressed genes more samples are needed. In case of fewer samples an alternative approach is to manually calculate the expected behaviour of the desired output genes. For example, we expect a gene to have lfc > 3 for samples 1vs2 and 5vs6. In this case the logfc_cols() function could be used to calculate and order individual logFold changes, which could be further used to select the genes with the desired begaviour.

Value

dataframe with 3 columns col1, col2, log2FC

Examples

logfc_cols(dataNorm_df, "column_name", "5")
logfc_cols(dataNorm_df, "column_name", 5)
logfc_cols(dataNorm_df, 1, 5)

Troshchk/bioEAT documentation built on Dec. 18, 2021, 5:13 p.m.