plot_cuperdec: Plot cumulative percent decay curves

In jfy133/cuperdec: Cumulative Percent Decay Curve Generator

Plot cumulative percent decay curves

Description

Generates visual representation of curves, with optional separate plotting of different groups, and also indication of individuals passing different on types filters.

Usage

plot_cuperdec(
  curves,
  metadata,
  burnin_result,
  restrict_x = 0,
  facet_cols = NULL
)

Arguments

curves	Output tibble from calculate_curve.
metadata	Output from load_map.
burnin_result	Output from apply_*_burnin. functions (optional).
restrict_x	Restrict viewing of abundance rank to X number of ranks (useful for closer inspection of curves) (optional).
facet_cols	Custom number of columns for faceted plots (optional).

Value

A ggplot2 image object.

Examples

data(cuperdec_taxatable_ex)
data(cuperdec_database_ex)
data(cuperdec_metadata_ex)

taxa_table <- load_taxa_table(cuperdec_taxatable_ex)
iso_database <- load_database(cuperdec_database_ex, target = "oral")
metadata_table <- load_map(cuperdec_metadata_ex,
  sample_col = "#SampleID",
  source_col = "Env"
)

curves <- calculate_curve(taxa_table, iso_database)
burnin_results <- adaptive_burnin_filter(curves, percent_threshold = 0.1)

plot_cuperdec(curves, metadata_table, burnin_results)

jfy133/cuperdec documentation built on Sept. 13, 2022, 5:28 a.m.