Implement temporal analysis and visualization tab

mani2012 / PathoStat

The purpose of this package is to perform Statistical Analysis on the PathoScope generated reports files.

8 stars 9 forks source link

Implement temporal analysis and visualization tab #4

Open ecastron opened 8 years ago

ecastron commented 8 years ago

Metagenomics as a field is starting to move to longitudinal/temporal analysis and visualizations. Yet, the are not many tools or packages with this type of functionality. This would be a new feature for PathoStats in the form of a tab.

Implement analysis as those described in PMID: 26005845
Implement a visualization such as "alluvial plots"

example alluvial plot

Sample data and code for alluvial plot:

alluvial_paper.R https://www.dropbox.com/s/d8hpyj0bt8ddtmv/sample_data.zip?dl=0

ecastron commented 8 years ago

Buttons on sidebar panel:

Subset by condition or use all samples
Select taxonomic rank (glom() function)
Select taxa of interest ()

Observation: sample_data column with time variable will be automatically selected by looking for colname("Time")