tempMLMOI: tempMLMOI: An R package for deriving multiplicity of...

In MLMOI: Estimating Frequencies, Prevalence and Multiplicity of Infection

tempMLMOI: An R package for deriving multiplicity of infection (MOI) from molecular data.

Description

The tempMLMOI package provides three functions:

• moimport;

• moimle;

• moimerge.

Details

The package reaches out to scientists that seek to estimate MOI and frequencies at molecular markers using the maximum-likelihood method described i n Schneider and Escalante (2018) and Schneider (2018). Users can import data from ‘.xlsx’ files in various formats, and perform maximum-likelihood estimation on the imported data by the package's mlmoi function.

Types of molecular data

Molecular data can be of types:

• microsatellite repeats (STRs);

• single nucleotide polymorphisms (SNPs);

• amino acids;

• codons (base triplets).

Import function

The function moimport, is designed to import molecular data. It imports molecular data in various formats and transforms them into a standard format.

Merging Datasets

Two datasets in standard format can be merged with the function moimerge.

Estimation MOI and frequencies

The function moimle is designed to derive MLE from molecular data in standard format.

MLMOI documentation built on May 29, 2024, 9:47 a.m.