checkInput: Checks the input data frame for incompatible values values,...

In roonysgalbi/tispec: Calculates tissue specificity from RNA-seq data

Description

The input dataframe contains expression data so each cell should contain only non-negative, non-infinite, numerical characters (>=0). This function identifies if the dataframe contains character strings, NAs, negative values or infinite values that must first be removed by the user.

Usage

checkInput(x)

Arguments

x	data frame of mean expression (cells) of genes (rows) in tissues (columns)

Value

Returns errors when incompatible values are found. Also returns a printout of the number of errors in each column. Nothing is returned If the dataframe is compatible with the package

Examples

## check example data
checkInput(meanExp)

## check data containing character strings
#df <- data.frame('col1' = c(1,'foo',3), 'col2' = c(4,5,'bar'))
#checkInput(df)

## check data containing other incompatible values
#df <- data.frame('col1' = c(1,2,Inf), 'col2' = c(-4,-Inf,6))
#checkInput(df)

roonysgalbi/tispec documentation built on May 26, 2019, 1:33 a.m.