strvalidator (version 0.3.0)

calculateBalance: Calculate balance

Description

calculateBalance calculates the inter and intra locus balance.

Usage

calculateBalance(data, ref, perSample = TRUE,
    lb = "prop", perDye = TRUE, ignoreCase = TRUE,
    debug = FALSE)

Arguments

data

a data frame containing at least 'Sample.Name', 'Marker', 'Height', 'Allele', and Dye'.

perSample

logical, default TRUE calculates balance for each sample, FALSE calculates the average across all samples.

lb

string. 'prop' is defualt and locus balance is calculated proportionally in relation to the whole sample. 'norm' locus balance is normalised in relation to the locus with the highest total peakheight.

perDye

logical, default is TRUE and locus balance is calculated within each dye. FALSE locus balance is calculated globally.

ignoreCase

logical indicating if sample matching should ignore case.

Value

• data.frame with with columns 'Sample.Name', 'Marker', 'Hb', 'Lb', 'MpH'. Or 'Sample.Name','Marker','Hb.n', 'Hb.Mean', 'Hb.Sd', 'Hb.95','Lb.n', 'Lb.Mean', 'Lb.Sd'.

Details

Calculates the inter and intra locus balance for a filtered dataset. Takes 'slimmed' data for samples and references as input.At the moment it is better to discard data prior to analysis than to use min/maxHeight. NB! Requires at least one row for each marker per sample, even if no data.

Examples

data(ref2)
data(set2)
# Calculate average balances.
calculateBalance(data=set2, ref=ref2, perSample=FALSE)