summary.Nonpareil.Curve: Returns a summary of the 'Nonpareil.Curve' results.

In Nonpareil: Metagenome Coverage Estimation and Projections for 'Nonpareil'

Returns a summary of the Nonpareil.Curve results.

Description

Returns a summary of the Nonpareil.Curve results.

Usage

## S3 method for class 'Nonpareil.Curve'
summary(object, ...)

Arguments

object	Nonpareil.Curve object.
...	Additional parameters ignored.

Value

Returns a matrix with the following values for the dataset:

• kappa: "Redundancy" value of the entire dataset.

• C: Average coverage of the entire dataset.

• LRstar: Estimated sequencing effort required to reach the objective average coverage (star, 95

• LR: Actual sequencing effort of the dataset.

• modelR: Pearson's R coefficient betweeen the rarefied data and the projected model.

• diversity: Nonpareil sequence-diversity index (Nd). This value's units are the natural logarithm of the units of sequencing effort (log-bp), and indicates the inflection point of the fitted model for the Nonpareil curve. If the fit doesn't converge, or the model is not estimated, the value is zero (0).

Nonpareil documentation built on June 28, 2024, 5:09 p.m.