In compbiomed/animalcules: Interactive microbiome analysis toolkit

knitr::opts_chunk$set(echo = TRUE)

Summary Plots

One type of summarization plot returns either a box plot or pie chart for continous or categorical data respectively while another type returns returns either a density plot or bar plot for continous or categorical data respectively.

Instructions:

Filter by either metadata or microbe information
Select a condition to filter by
Choose a cutoff point or range of acceptable values
(Optional) Discard samples or organisms (must click Discard to apply selections)
Click filter to filter the datasaet
Click reset to remove all previous applied filters
Click download (either animalcules or BIOM file) to export the modified animacules file for later use

Running time: < 1s

Categorize

It is often necessary to bin continuous data into categories when performing analyses that require categorical input. To help ease this process, users can automatically categorize categorical data and provide custom bin breaks and labels in doing so.

Instructions:

Select a continuous variable to categorize
(Optional) Choose the number of bins
(Optional) Choose a new variable name
(Optional) Select "Advanced Options"
- (Optional) Set custom breaks to define the new bins
- (Optional) Add custom labels to each of the bins
Click "Create Bins"

Running time: < 1s