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bioclients

Python package for access to online biomedical resources, usually via REST APIs.

blotit2

bqplot

Plotting library for IPython/Jupyter Notebooks

centrosome

An open source image processing library

d2d

a modeling environment tailored to parameter estimation in dynamical systems

dash

Interactive, reactive web apps in pure python :level_slider: :bar_chart:

diffeqparamestim.jl

A component of the DiffEq ecosystem for parameter estimation

dmod

Dynamic modeling and parameter estimation in R

drawio-export

Export Draw.io diagrams using docker

estimation_nociceptive_model

ipywidgets

Interactive Widgets for the Jupyter Notebook

mecagen

Simulation platform of animal embryogenesis

miniconda_fitting

mito-morphology-classification

ndtest

multi-dimensional statistical test with python

nuset

NuSeT: A Deep Learning Tool for Reliably Separating and Analyzing Crowded Cells

odes

The ODES scikit for ordinary differential and algebraic equations, an extension to scipy

physiboss

Multiscale simulation of multi-cellular system

pycvodes

Python wrapper around cvodes (from the sundials library)

pydde

PyDDE: Python/C DDE solver

pyodesys

∫ Straightforward numerical integration of systems of ordinary differential equations

pypesto

python Parameter EStimation TOolbox

sendigr

Enable Cross-Study Analysis of 'CDISC' 'SEND' Datasets

tcellactivation_ode_immunity2020

Code needed for the modeling and fitting in Zenke et al, Immunity, 2020

waskom_pnas_2017

Analysis code for Waskom and Wagner (2017) PNAS