R: Metagenome Coverage Estimation and Projections for 'Nonpareil'

# Metagenome Coverage Estimation and Projections for 'Nonpareil'

## Documentation for package ‘Nonpareil’ version 3.5.3

- DESCRIPTION file

## Help Pages

Nonpareil-package | Nonpareil: Metagenome Coverage Estimation and Projections for 'Nonpareil'.
$-method | Get attribute.
$-method | Get attribute.
$<--method | Set attribute.
$<--method | Set attribute.
+-method | Alias of 'Nonpareil.add.curve'.
Nonpareil | Nonpareil: Metagenome Coverage Estimation and Projections for 'Nonpareil'.
Nonpareil.add.curve | Adds a 'Nonpareil.Curve' to a 'Nonpareil.Set'.
Nonpareil.antif | Complement function of 'Nonpareil.f'.
Nonpareil.col | Returns the color of the curve.
Nonpareil.coverage_factor | Factor to transform redundancy into coverage (internal function).
Nonpareil.curve | Generates a Nonpareil curve from an .npo file
Nonpareil.Curve-class | A single Nonpareil curve. This object can be produced by 'Nonpareil.curve' and supports S4 methods 'plot', 'summary', 'print', and 'predict'. For additional details, see help for 'summary.Nonpareil.Curve'.
Nonpareil.curve.batch | Alias of 'Nonpareil.set'.
Nonpareil.f | Function of the projected model.
Nonpareil.fit_model | Fit the sigmoidal model to the rarefied coverage.
Nonpareil.legend | Generates a legend for Nonpareil plots.
Nonpareil.read_data | Read the data tables and extract direct estimates.
Nonpareil.read_metadata | Read the metadata headers.
Nonpareil.set | Generates a collection of Nonpareil curves (a 'Nonpareil.Set' object) and (optionally) plots all of them in a single canvas.
Nonpareil.Set-class | Collection of 'Nonpareil.Curve' objects. This object can be produced by 'Nonpareil.curve.batch' and supports S4 methods 'plot', 'summary', and 'print'.
plot.Nonpareil.Curve | Plot a 'Nonpareil.Curve' object.
plot.Nonpareil.Set | Plot a 'Nonpareil.Set' object.
predict.Nonpareil.Curve | Predict the coverage for a given sequencing effort.
print.Nonpareil.Curve | Prints and returns invisibly a summary of the 'Nonpareil.Curve' results.
print.Nonpareil.Set | Prints and returns invisibly a summary of the 'Nonpareil.Set' results.
summary.Nonpareil.Curve | Returns a summary of the 'Nonpareil.Curve' results.
summary.Nonpareil.Set | Returns a summary of the 'Nonpareil.Set' results.