This repository contains workflow for moving-window-analysis (MWA) carried out on secondary metabolite BGC genes of bacterial origin
Documentation --> https://mwa-secmet-bgc.readthedocs.io/en/latest/index.html
The workflow requires the following preinstalled components on the system.
- A linux sub-system
- Initialised miniconda package manager
- Jupyter installed in the base environment of miniconda.
- Navigate to your directory
cd path/to/your/dir
- Clone this repository in that directory
git clone https://github.com/somakchowdhury/mwa-secmet-bgc.git
- Navigate to
mwa-secmet-bgcfolder - Then run this command
jupyter notebook
- In the browser open the jupyter notebook file
.ipynb
Follow through the steps listed in the workflow.
Four unnumbered output folders will be created at the end of the workflow.
mwa-secmet-bgc
|___fragmented_pairs/
|___blast_out/
|___result_plots/
|___result_tables/
The results_plot/ contains pairwise graphs of the compared sequences with appropriate titles for subject and query
The result_tables/ contains modified and filtered blast output tables that were used to produce the plots.
