lmfit
Non-Linear Least Squares Minimization, with flexible Parameter settings, based on scipy.optimize, and with many additional classes and methods for curve fitting.
PETRARCH2
PETRARCH2: Another Event Coding Program - Published in JOSS (2017)
thresholdmodeling
thresholdmodeling: A Python package for modeling excesses over a threshold using the Peak-Over-Threshold Method and the Generalized Pareto Distribution - Published in JOSS (2020)
MDCraft
MDCraft: A Python assistant for performing and analyzing molecular dynamics simulations of soft matter systems - Published in JOSS (2024)
BioSimSpace
BioSimSpace: An interoperable Python framework for biomolecular simulation - Published in JOSS (2019)
usearch
Fast Open-Source Search & Clustering engine × for Vectors & Arbitrary Objects × in C++, C, Python, JavaScript, Rust, Java, Objective-C, Swift, C#, GoLang, and Wolfram 🔍
aion
aion: An R Package to Represent Archaeological Time Series - Published in JOSS (2024)
chombo-discharge
chombo-discharge: An AMR code for gas discharge simulations in complex geometries - Published in JOSS (2023)
Effluent
Effluent: A Python package for modelling effluent discharge - Published in JOSS (2023)
Viime
Viime: Visualization and Integration of Metabolomics Experiments - Published in JOSS (2020)
AutoEncoderToolkit.jl
AutoEncoderToolkit.jl: A Julia package for training (Variational) Autoencoders - Published in JOSS (2024)
TLViz
TLViz: Visualising and analysing tensor decomposition models with Python - Published in JOSS (2022)
Cellocity
Cellocity: A Python package for analysis of confluent cell layer dynamics - Published in JOSS (2021)
Torque-limited simple pendulum
Torque-limited simple pendulum: A toolkit for getting familiar with control algorithms in underactuated robotics - Published in JOSS (2022)
qtl2pleio
qtl2pleio: Testing pleiotropy vs. separate QTL in multiparental populations - Published in JOSS (2019)
Oceananigans.jl
Oceananigans.jl: Fast and friendly geophysical fluid dynamics on GPUs - Published in JOSS (2020)
SAMBA
SAMBA: A Trainable Segmentation Web-App with Smart Labelling - Published in JOSS (2024)
Opfi
Opfi: A Python package for identifying gene clusters in large genomics and metagenomics data sets - Published in JOSS (2021)