The visualizations are a set of html files that can be viewed in the browser.
The title and axis labels can be edited by clicking on them. Video
The legend can also be edited, and can be moved by clicking and dragging. Video
To save the plot, click on the camera icon in the menu. The browser will download the png file. Video
To edit the graph further, you can export the data to Plotly Chart Studio by clicking on "Export Data to Plotly." See the Plotly Chart Studio tutorials for more information.
The Morpheus documentation shows how to use the various features of the heatmap. We will show some examples of how these features could be used specifically for the output of the Nephele 16S pipelines. Note: the features work best in Google Chrome.
Filter Low Abundant Taxa
Taxa can be filtered based on maximum abundance across all samples or the number of samples for which they are present.
Select Tools > Create Calculated Annotation.
Maximum abundance: Enter Max for Annotation Name and MAX() for Formula.
Number of samples: Enter Annotation NameNum samples and COUNTIF(">0") for Formula.
Select Tools > Filter > Add.
Maximum abundance: Choose FieldMax. You can choose a minimum value for the range. This will filter out taxa which are below this value across all samples. Or you can Switch to top filter to see the top most abundant taxa.
Number of samples: Choose FieldNum samples . You can choose a range for the number of samples or you can Switch to top filter to see the most frequent taxa across all samples.