Projects in Awesome Lists by benmaier

https://github.com/benmaier/netwulf

Interactive visualization of networks based on Ulf Aslak's d3 web app.

d3 network-visualization networkx python

Last synced: 04 Apr 2025

https://github.com/benmaier/tacoma

Temporal networks in Python. Provides fast tools to analyze temporal contact networks and simulate dynamic processes on them using Gillespie's SSA.

contact-networks epidemics face-to-face face2face network-visualization networks temporal-networks

Last synced: 15 Apr 2025

https://github.com/benmaier/reaction-diffusion

Some Python examples to obtain reaction-diffusion results and animations.

matplotlib-animation python3 reaction-diffusion

Last synced: 30 Apr 2025

https://github.com/benmaier/binpacking

Distribution of weighted items to bins (either a fixed number of bins or a fixed number of volume per bin). Data may be in form of list, dictionary, list of tuples or csv-file.

Last synced: 07 Apr 2025

https://github.com/benmaier/epipack

Fast prototyping of infectious-disease models based on reaction equations. Analyze the ODEs analytically or numerically, or run stochastic simulations on networks/well-mixed systems.

Last synced: 30 Apr 2025

https://github.com/benmaier/covid19casenumbermodel

Fit the algebraic growth of case numbers in Mainland China with an SIR-containment model

Last synced: 12 May 2025

https://github.com/benmaier/smallworld

Generate and analyze small-world networks according to the revised Watts-Strogatz model where the randomization at β = 1 is truly equal to the Erdős-Rényi network model.

networks networkx networkx-drawing-utilities small-world-networks

Last synced: 21 Apr 2025

https://github.com/benmaier/python-fisheye

Transform single points or arrays of points using several fisheye functions.

Last synced: 21 Apr 2025

https://github.com/benmaier/fisheye

The original fisheye function has a visual flaw due to discontiuities in its first derivative. Here, I present a fisheye function which is continuously differentiable and hence more pleasing to the eye.

Last synced: 21 Apr 2025

https://github.com/benmaier/qsuite

command line tool to provide an easy framework to submit computer simulations of arbitrary variety in parameter space to various cluster frameworks

Last synced: 21 Apr 2025

https://github.com/benmaier/phase_space_example

Examples on how to integrate ODE systems with Python and how to plot trajectories in phase space.

Last synced: 21 Apr 2025

https://github.com/benmaier/thresholdmodel

Simulate a continuous-time Watts threshold model on static networks.

cascades networks networkx python threshold-model watts

Last synced: 21 Apr 2025

https://github.com/benmaier/better_understanding

A track made with Sonic Pi

sonic-pi sonicpi

Last synced: 13 Mar 2025

https://github.com/benmaier/couzinswarm

Simulating fish swarming behavior using the model by Iain Couzin et al.

collective-behavior fish-swarms swarms systems-biology

Last synced: 21 Apr 2025

https://github.com/benmaier/gillepi

Provides classes to simulate epidemics on (potentially time-varying) networks using a Gillespie stochastic simulation algorithm or the classic agent based method.

agent-based-modeling complex-networks dynamic-networks epidemics si simulate-epidemics sir sirs sis

Last synced: 13 Mar 2025

https://github.com/benmaier/thredgecorr

Generate instances of the thresholded locally correlated edge weights network model and calculate its properties.

Last synced: 21 Apr 2025

https://github.com/benmaier/kd-tree-js

A JavaScript implementation of a kd tree that enables fast searches for points within a range as well as nearest neighbors in d dimensions

Last synced: 13 Mar 2025

https://github.com/benmaier/bfmplot

A collections of snippets and tools to make my plots and my life easier.

matplotlib plots

Last synced: 21 Apr 2025

https://github.com/benmaier/cividis

Register `cividis` with matplotlib, a color map optimized for color vision deficiency, as published in Nuñez, et al. (2018), PLoS ONE 13(7): e0199239 .

cividis colormap cvd matplotlib

Last synced: 31 Mar 2025

https://github.com/benmaier/pipetex2tex

CLI to convert LaTeX source with piped "\input{|...}" commands into pure LaTeX.

Last synced: 13 Mar 2025

https://github.com/benmaier/cv

My automatically generated CV

Last synced: 21 Apr 2025

https://github.com/benmaier/numpyarray_to_latex

Format numpy arrays as LaTeX arrays

Last synced: 13 Mar 2025

https://github.com/benmaier/komoog

Convert your hiking trips into sounds

Last synced: 07 Apr 2025

https://github.com/benmaier/cthredgecorr

For fast generation of edge lists from the thresholded edge correlation model.

Last synced: 31 Mar 2025

https://github.com/benmaier/effective-distance

provides a few functions to produce an effective distance tree from a given graph and root node

Last synced: 31 Mar 2025

https://github.com/benmaier/cmhrn

Creates modular hierarchical random networks in a fast manner.

Last synced: 31 Mar 2025

https://github.com/benmaier/drei-fragezeichen-sleeping-beauty

Analyzing whether people use "Die drei ???" to fall asleep using Spotify track popularity data.

Last synced: 31 Mar 2025

https://github.com/benmaier/gtom

Computes the general topological overlap measure for undirected and unweighted networks

Last synced: 02 May 2025

https://github.com/benmaier/radial-distance-layout

Generates a radial layout for trees whose nodes are associated with a distance to the root

Last synced: 02 May 2025

https://github.com/benmaier/similarity-indices

Compute diverse incidence based or abundance based similarity indices between two numpy arrays.

Last synced: 02 May 2025

https://github.com/benmaier/de-omicron-wave-results

Results of a modelling study regarding the spread of SARS-CoV-2 VOC "Omicron" in Germany

Last synced: 31 Mar 2025

https://github.com/benmaier/lyxtuftethesis

A LyX template for PhD theses at HU Berlin

lyx lyx-template phd-thesis phd-thesis-template

Last synced: 31 Mar 2025

https://github.com/benmaier/diese-visuelle-welt

ruby script for the track "Diese visuelle Welt" written in Sonic Pi

music sonic-pi

Last synced: 31 Mar 2025

https://github.com/benmaier/nwdiff

Simulates diffusion processes on networks.

Last synced: 31 Mar 2025

https://github.com/benmaier/boarding_school_sir

Fit SIR dynamics to the prevalence curve of an H1N1 outbreak of a British boarding school in 1978.

boarding data disease epidemiology modeling school spreading

Last synced: 31 Mar 2025

https://github.com/benmaier/dyngillepi

Runs Gillespie contagion processes on time dependent contact networks.

Last synced: 31 Mar 2025

https://github.com/benmaier/network-properties

Package to easily compute and wrap a bunch of network properties for a given graph

Last synced: 31 Mar 2025

https://github.com/benmaier/cnetworkdiff

For fast diffusion simulation (or random walks) on networks.

Last synced: 31 Mar 2025

https://github.com/benmaier/biasedrandomwalks

Provides classes around biased random walks on networks.

biased-random-walk graphs networks random-walk

Last synced: 31 Mar 2025

https://github.com/benmaier/fincoretails

Fit a bunch of distributions with finite core and heavy tails to data

Last synced: 31 Mar 2025

https://github.com/benmaier/network-centrality-visualizations

Some hacky code to visualize centrality measures in networks

Last synced: 31 Mar 2025

https://github.com/benmaier/networks2021-hons-softwaredemo

Stuff that I showed or wasn't able to show during my talk in the HON satellite of the Networks 2021 conference

Last synced: 31 Mar 2025

https://github.com/benmaier/cquadtree

Python API to a C++-implementation of a BarnesHutTree/QuadTree

Last synced: 31 Mar 2025

https://github.com/benmaier/3d-fractals

create 3D fractals in blender

Last synced: 31 Mar 2025

https://github.com/benmaier/example-crud-select2

Using select2 asynchronously in both create and update like you would do in django-admin

Last synced: 31 Mar 2025

https://github.com/benmaier/sixdegrees

Sample from a variety of small-world network models in Python and C++. This includes a model with modular hierarchical community structure.

community-structure kleinberg modular-hierarchical networks networkx python small-world

Last synced: 31 Mar 2025

https://github.com/benmaier/scipy_ode_example

Last synced: 31 Mar 2025

https://github.com/benmaier/rkigeonameapi

An API to make relevant queries to an edited Geoname-DB instance.

Last synced: 31 Mar 2025

https://github.com/benmaier/copenhagen-networks-study-bluetooth-mysql

Import Bluetooth contact data from the Copenhagen Networks Study to a MySQL database

Last synced: 31 Mar 2025

https://github.com/benmaier/geonameapi

A small API to send search queries to a geoname database.

Last synced: 31 Mar 2025

https://github.com/benmaier/vaccontrib

Quantifying the contributions vaccinated individuals make to the reproduction number

Last synced: 31 Mar 2025

https://github.com/benmaier/buehne

Ambient track made in Sonic Pi

sonic-pi

Last synced: 31 Mar 2025