correct_RLayout: Data correction functions

In bgfanalyzer: Analyze Microbial Biogas Fermentation Data

Data correction functions

Description

A set of functions that provide shortcuts for frequently used operations conducted on a BGF. For instance, they allow to specify the reactor layout in a formula like manner or to change a the type of any column of a BGF's metaData or BioGasData layer to numeric.

Usage

correct_RLayout(lo)

cols_to_numeric(x, vec = c(2:4), layer = "BioGasData")

Arguments

lo	a character specifying a reactor layout (via the 'ReactorLayout' argument of certain bgfanalyzer functions)
x	a BGF
vec	either a character of column names or an integer indicating the positions of columns in the chosen layer
layer	a character specifying a layer of a BGF. Can be 'metaData' or 'BioGasData'

Details

The function correct_RLayout allows to write 'ReactorLayout=c("3*Blank","3*Cellulose","3*Treatment A")' instead of 'ReactorLayout=c("Blank","Blank","Blank","Cellulose","Cellulose","Cellulose","Treatment A","Treatment A","Treatment A")' or 'ReactorLayout=c(rep("Blank",3),rep("Cellulose",3),rep("Treatment A",3))'.

The function will recognize the '\*' and expects an integer on the left side specifying how often the right side should be repeated.

It is useful when dealing with replicates among the fermentations of a BGF, as it can be used to add redundant information to the 'metaData' layer of a (see examples).

The function cols_to_numeric allows to change the type of any column in the metaData or BioGasData layer of a BGF to numeric. It is possible to apply this change to several columns of the same layer at once.

Value

a character (correct_RLayout)

a BGF (cols_to_numeric)

Examples

# define a reactor layout
RL <- c("3*Blank","3*Cellulose","3*Treatment A")

# correct reactor layout
RL_cor <- correct_RLayout(RL)

RL_cor # print corrected layout

# example code
myBGF <- BGF(RL)

# add dry total solutes concentration to 'metaData'
myBGF<-add_metaData(x = myBGF,what = correct_RLayout(c("3*2.9","3*98.7","3*8.4")),lab="TS")

# change the new 'TS' column in 'metaData' layer to numeric
myBGF <- cols_to_numeric(myBGF,"TS","metaData")

bgfanalyzer documentation built on Sept. 26, 2026, 5:07 p.m.