Network Dynaimcs Simulation

Overview
A Final Year Project in CUHK, Autumn 2021

Network Dynaimcs Simulation


Files

param.h

  • edit all the variables & settings here

simulate.c

  • the main program to run the network dynaimcs

How to use

  1. edit variables in param.h
  2. place param.h and simulate.c in the same folder
  3. compile simulate.c: gcc -O3 simulate.c -o simulate
  4. wait for results

Output

export up to 4 files

OUT_SPIK

  • stores all the spiking data
    • column 1: index of nodes, starting from 1
    • column 2: number of spikes of the corresponding node
    • remining columns: time-stamps of each spikes

OUT_POTV

  • stores the time series of membrane potential v(t) for the network dynamics

OUT_INFO

  • stores all the variables and settings as well as execution time for a simulation, for later reference

INI_CNFG

  • same as OUT_INFO, designated for easy computer program importation

Notes

  1. results will be output in the same folder as the codes, i.e., next to them

Optimization

Choice of compiler

After compiling the source code with several C compilerson Windows system, MinGW TDM-GCC 64 seems to be a good choice. Its running time is lesser than Cygwin64, the attached terminal of Visual Studio Code and MinGW 64/32. You can find MinGW TDM-GCC 64 here: https://jmeubank.github.io/tdm-gcc/

Compiling flag

I recommend using the -O3 flag when compiling, e.g., >gcc -O3 simulate.c -o simulate It turns on all the -O3 optimization flags, which reduce the running time significantly. Visit here for more details: https://gcc.gnu.org/onlinedocs/gcc/Optimize-Options.html

Notes

This program creates multiple 1-/2-dimensional arrays when running. It accesses the array elements in the tightest loops. Fast memory is essential as the program freqently reads from / writes into RAM. Also, if you enable output for time series, try to write the file on a fast drive, such as SSD, it will be substantially faster. You can change the output path for time series data file in 'param.h'.



Analysing Network and Their Dynamics


Files

coupling.py

  • calculate
    • connection probability
    • statistics of synaptic weight
    • average synaptic weight
    • ratio of suppression & enhancement
  • plot
    • average synaptic weight distribution

spiking.py

  • calculate
    • average firing rate and its statistics
    • statistics of ISI (inter-spike interval)
    • identifying bursting nodes (work in progess)
    • statistics of synaptic weight of a network
    • average synaptic weight
    • ratio of suppression & enhancement
  • plot
    • reformat spiking data
    • spike raster plot
    • firing rate distribution
    • ISI distribution

spiking_compare.py

  • calculate
    • changes in firing rate
    • ratio of change in firing rate
  • plot
    • firing rate distribution (compared)
    • ISI distribution (compared)
    • change in firing rate distribution (&combined)
    • Ratio of suppression / enhancement vs ratio of increase in firing rate (&combined)
Owner
Likchun
Hello
Likchun
Decentra Network is an open source blockchain that combines speed, security and decentralization.

Decentra Network is an open source blockchain that combines speed, security and decentralization. Decentra Network has very high speeds, scalability, asymptotic security and complete decentralization

Decentra Network 74 Nov 22, 2022
Automated network configuration backups using Github actions and git-scraping

Network Config Scraper This repository demonstrates the use of Github Actions and git-scraping to build an automated backup solution for network confi

WWT 19 Dec 14, 2022
libsigrok stacked Protocol Decoder for TPM 2.0 transactions from an SPI bus. BitLocker Volume Master Key (VMK) are automatically extracted.

libsigrok stacked Protocol Decoder for TPM 2.0 transactions from an SPI bus. BitLocker Volume Master Key (VMK) are automatically extracted.

Jordan Ovrè 9 Dec 26, 2022
NetMiaou is an crossplatform hacking tool that can do reverse shells, send files, create an http server or send and receive tcp packet

NetMiaou is an crossplatform hacking tool that can do reverse shells, send files, create an http server or send and receive tcp packet

TRIKKSS 5 Oct 05, 2022
Throttle rTorrent on Plex stream Start/Stop

Dependencies Python 3.6+ Tautulli Script Setup Edit rtorrent_throttle.py and set rTorrent username, password and RPC2 url. Tautulli Setup Commum Scrip

4 Apr 25, 2022
Connection package to a raspberry or any other machine using ssh, it simplifies the deployment scripts and monitoring.

Connection package to a raspberry or any other machine using ssh, it simplifies the deployment scripts and monitoring.

Dashstrom 7 Mar 29, 2022
Simple reverse backdoor utility, that uses sockets to communicate.

reverse_backdoor Simple reverse backdoor utility, that uses sockets to communicate. How to use Run rev_bd_listener.py using command below: $ python3 r

1 Dec 10, 2021
ProxyBroker is an open source tool that asynchronously finds public proxies from multiple sources and concurrently checks them

ProxyBroker is an open source tool that asynchronously finds public proxies from multiple sources and concurrently checks them. Features F

Denis 3.2k Jan 04, 2023
Nexum is an open-source, remote administration tool written in Python 3

A full-featured remote administration tool written in Python 3. The goal of this project is to make the use of a remote administration tool as simple

z3phyrus 2 Nov 26, 2021
GitHub action for sspanel automatically checks in to get free traffic quota

SSPanel_Checkin This is a dish chicken script for automatic check-in of sspanel for GitHub action, It is only applicable when there is no verification

FeedCatWithFish 7 Apr 28, 2022
Asyncer, async and await, focused on developer experience

Asyncer, async and await, focused on developer experience. Documentation: https:

Sebastián Ramírez 895 Dec 28, 2022
NSX-T infrastructure as code - SDDC deployment

Deploy NSX-T Infrastructure - Simple Topology by Nicolas MICHEL @vpackets / LinkedIn Introduction The purpose of this entire repository is to automate

21 Nov 28, 2022
Keep your application settings in sync (OS X/Linux)

Mackup Keep your application settings in sync. Table of content Quickstart Usage What does it do Bullsh*t, what does it really do to my files Supporte

Laurent Raufaste 12.8k Jan 08, 2023
Python implementation of the IPv8 layer provide authenticated communication with privacy

Python implementation of the IPv8 layer provide authenticated communication with privacy

203 Oct 26, 2022
A Python framework for interacting with Solana's Pyth network.

Pyth Network A basic Python framework for reading and decoding data regarding the Pyth network

1 Nov 29, 2021
RabbitMQ asynchronous connector library for Python with built in RPC support

About RabbitMQ connector library for Python that is fully integrated with the aio-pika framework. Introduction BunnyStorm is here to simplify working

22 Sep 11, 2022
A python shell / chat bot for XMPP and cloud services

XMPP_Shell_Bot A python shell / chat bot for XMPP and cloud services, designed for penetration testers to bypass network filters. To better understand

Abdulkareem Aldeek 1 Jan 09, 2022
This script will make it easier to connect to any wireguard vpn config

wireguard-linux-python-script-vpn This script will make it easier to connect to any wireguard vpn config also u will need your wireguard vpn from your

Jimo 1 Sep 21, 2022
A simple port scanner for Web/ip scanning Port 0/500 editable inside the .py file

Simple-Port-Scanner a simple port scanner for Web/ip scanning Port 0/500 editable inside the .py file Open Cmd/Terminal Cmd Downloads Run Command: pip

YABOI 1 Nov 22, 2021
Juniper SNMP Migrations For Python

Juniper SNMP Migrations This example will show how to use the PyEZ plugin for Nornir to build a NETCONF connection to a remote device validate that SN

Calvin Remsburg 1 Jan 07, 2022