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ViewBovine

bTB Whole Genome Sequencing Application

Cover of ViewBovine

Prerequisites

apt install python3-flask python3-requests

Install and Run

git clone https://github.com/aphascience/bTBWGS.git
cd bTBWGS
python main.py

Technology Stack

  1. Python Flask (http://flask.pocoo.org/)
  2. Leaflet for Map View (https://leafletjs.com/)
  3. GeoTools for WGS84-OSGB36 conversions (https://www.nearby.org.uk/tests/GeoTools2.html)

Functions

  1. Search a sample and show the related herd on the map
  2. Show sample related cattle movements on the map
  3. Search genetic neighbourhood of a sample and show all herds on the map
  4. Cluster all sample based on their genetic distance and show them on the map
  5. View sub-cluster within a cluster on the map