AgrOmicSo
Agri-bio Omics Solution
AgrOmicSo is a user-friendly platform that streamlines the analysis of NGS data by automating key steps such as data registration, preprocessing, read mapping, and variant calling. Designed with accessibility in mind, the software allows even non-experts to perform complex genomic analyses with ease.
Quick Start
1

Download the server and client programs, scripts, and database file. Download

2

Place server.py, process.py, and AgrDB.sql in the same folder on the server.

3

un the server.py and process.py scripts in background mode on the server.

4

Modify the setup.cfg file on the client according to your configuration.

### Server Communication (Socket) Connection Address
IP=xxx.com
### Server Communication (Socket) Connection Port
PORT=6666
### Server Communication (FTP) Connection Address
FTP_ADDRESS=xxx.com
### Server Communication (FTP) Connection Port
FTP_PORT=21
### Server Communication (FTP) Account ID
FTP_USERNAME=username
### Server Communication (FTP) Account Password
FTP_USERPASS=1234
### Path to JBrowse Executable File
JB_PATH=JBrowse-1.16.11-desktop-win32-x64\JBrowse-1.16.11-desktop.exe
5

Run the AgrOmicSo executable file for your operating system on the client.

Check Resources

Python version 3.8.10 or higher

To run the project, you need to install the following Python modules

socket
json
datetime
bcrypt
socket
shutil
re
struct
concurrent.futures
flask (you will use from flask import Flask, request, jsonify)
threading
subprocess

Environment & Dependency Files

Manual

4.4M (PDF)

Download Manual
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