View source: R/amp_rankabundance.R
amp_rankabundance | R Documentation |
Generates a rank abundance curve (rank abundance vs cumulative read abundance), optionally with standard deviation from mean intervals.
amp_rankabundance(data, group_by, showSD = TRUE, log10_x = TRUE)
amp_rank_abundance(data, group_by, showSD = TRUE, log10_x = TRUE)
data |
(required) Data list as loaded with |
group_by |
(required) Group the samples by a variable in the metadata. |
showSD |
Show standard deviation from mean or not. (default: |
log10_x |
Log10-transform the x-axis or not. Often most variation is observed among the most abundant OTU's, log10-transforming the x-axis will highlight this better. (default: |
Currently only OTU level is supported.
A ggplot2 object.
Kasper Skytte Andersen ksa@bio.aau.dk
Mads Albertsen MadsAlbertsen85@gmail.com
amp_load
# Load example data
data("AalborgWWTPs")
# Rank abundance plot
amp_rankabundance(AalborgWWTPs, group_by = "Plant", showSD = TRUE, log10_x = TRUE)
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.