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. |