Version: v0.0.1
The Metagenomic Trait Analysis can be used to analyse your Megan KEGG name to Count data.
This program is written Python and requires Python 3.6+. Furthermore, the following packages are required:
setuptools~=49.6.0
pandas~=1.2.4
matplotlib~=3.4.1
numpy~=1.19.2
scipy~=1.6.2
No Internet connection is required to run the program.
-i INPUT [INPUT ...], --input INPUT [INPUT ...]
Use this to import your exported Megan6 files. Export the required file from Megan6 by opening the KEGG viewer in the main panel. From there, uncollapse the annotation tree (Top-Panel => Tree => Uncollapse All) and select all nodes and leaves (Ctrl/Cmd + a). From the Top-Panel, choose File and move the cursor to Export and click on Text (CSV) Format. Export eggnogName_to_count and separator comma. The file that is then exported can be used for the analysis.
Multiple files can be added, only separated by a space.
-o OUTPUT, --output OUTPUT
Choose a valid output Path and name.
-t TOP, --top TOP
Optional: Include this flag together with a positive number (Note: neg. numbers will be converted to pos) to choose your own top N annotations to be analyzed in the heatmap. Default is 10.
Note: For a better readability, the maximum depends on how many input files are given and how many high scoring traits they have in common. It is suggested to start with the default value and increase it with every run.