summarize_ACL: summarize average carbon chain length

In zhuchcn/HTSet: High through-put experiment dataset container

Description

Calculate the ACL (average carbon chain length) of each lipid class. The ACL of lipid class k in sample i is calculated using the equation below:

ACL_i,k = Σ (conc_i,j,k*nc_j,k) / Σ (conc_i,j,k*nfa_j,k)

Where conc_i,j,k is the mol concentration of lipid j that belongs to class k in sample i; nc_j,k is the number of carbon of lipid j that belongs to class k; and nfa_j,k is the number of fatty acyls of lipid j that belongs to class k.

Usage

summarize_ACL(object, name, class)

Arguments

object	HTSet-class
name	character. The column name of the feature variable contains the annotation name in fdata. The annotation name must be first cleaned by the format_lipid_name.
class	character. The name of the feature variable that contains the lipid class.

Value

HTSet-class

Author(s)

Chenghao Zhu

References

Zhu, C. et al., The HDL lipidome is widely remodeled by fast food versus Mediterranean diet in 4 days. Metabolomics, 2019 Aug 17;15(8):114. doi: 10.1007/s11306-019-1579-1.

zhuchcn/HTSet documentation built on April 10, 2020, 4:51 p.m.