BayesReconPy — Peer-reviewed • Science 93%

BayesReconPy: A Python package for forecast reconciliation - Published in JOSS (2025)

SOAP — Peer-reviewed • Science 93%

SOAP: A Python Package for Calculating the Properties of Galaxies and Halos Formed in Cosmological Simulations - Published in JOSS (2025)

PolytopeWalk — Peer-reviewed • Science 93%

PolytopeWalk: Sparse MCMC Sampling over Polytopes - Published in JOSS (2025)

The Population Synthesis Toolkit (PST) Python Library — Peer-reviewed • Science 98%

The Population Synthesis Toolkit (PST) Python Library - Published in JOSS (2025)

PyStarshade — Peer-reviewed • Science 93%

PyStarshade: Simulating High-Contrast Imaging of Exoplanets with Starshades - Published in JOSS (2025)

PAAT — Peer-reviewed • Science 93%

PAAT: Physical Activity Analysis Toolbox for the analysis of hip-worn raw accelerometer data in Python - Published in JOSS (2025)

EvoVis — Peer-reviewed • Science 67%

EvoVis: Dashboard for Visualizing Evolutionary Neural Architecture Search Algorithms - Published in JOSS (2025)

ExcelToShiny — Peer-reviewed • Science 93%

ExcelToShiny: An R Package for Automating Shiny Dashboard Creation from Excel Templates - Published in JOSS (2025)

VectoRose — Peer-reviewed • Science 98%

VectoRose: A new package for analysing and visualising 3D non-unit vectors in Python - Published in JOSS (2025)

bisonpicsuite — Peer-reviewed • Science 93%

bisonpicsuite: A set of R packages to estimate wood bison population parameters from remote camera data. - Published in JOSS (2025)

gaia — Peer-reviewed • Science 100%

gaia: An R package to estimate crop yield responses to temperature and precipitation - Published in JOSS (2025)

Lighter — Peer-reviewed • Science 93%

Lighter: Configuration-Driven Deep Learning - Published in JOSS (2025)

3DQLayers — Peer-reviewed • Science 98%

3DQLayers: Volumetric Layer Based Analysis for Quantitative Renal MRI - Published in JOSS (2025)

TurboFlow — Peer-reviewed • Science 93%

TurboFlow: Meanline Modelling of Axial Turbines - Published in JOSS (2025)

PointClouds.jl — Peer-reviewed • Science 96%

PointClouds.jl: Fast & flexible processing of lidar data - Published in JOSS (2025)

dpest — Peer-reviewed • Science 98%

dpest: Streamlining Creation of PEST input files for DSSAT Crop Model Calibration - Published in JOSS (2025)

MEDUSA — Peer-reviewed • Science 93%

MEDUSA: An R tool to model equity and distributional impacts - Published in JOSS (2025)

AutoUncertainties — Peer-reviewed • Science 93%

AutoUncertainties: A Python Package for Uncertainty Propagation - Published in JOSS (2025)

Solar Data Tools — Peer-reviewed • Science 96%

Solar Data Tools: a Python library for automated analysis of unlabeled PV data - Published in JOSS (2025)

medRCT — Peer-reviewed • Science 93%

medRCT: Causal mediation analysis estimating interventional effects mapped to a target trial in R - Published in JOSS (2025)

Syclops — Peer-reviewed • Science 96%

Syclops: A Modular Pipeline for Procedural Generation of Synthetic Data - Published in JOSS (2025)

RiverFlowDynamics v1.0 — Peer-reviewed • Science 92%

RiverFlowDynamics v1.0: A Landlab component for computing two-dimensional river flow dynamics - Published in JOSS (2025)

Mozzie — Peer-reviewed • Science 98%

Mozzie: a computationally efficient simulator for the spatio-temporal modelling of mosquitoes - Published in JOSS (2025)

REMORA — Peer-reviewed • Science 93%

REMORA: Regional Modeling of Oceans Refined Adaptively (built on AMReX) - Published in JOSS (2025)

ICAT — Peer-reviewed • Science 96%

ICAT: The Interactive Corpus Analysis Tool - Published in JOSS (2025)

Giga Connectome — Peer-reviewed • Science 98%

Giga Connectome: a BIDS-app for time series and functional connectome extraction - Published in JOSS (2025)

AI-ANNE — Peer-reviewed • Science 93%

AI-ANNE: (A) (N)eural (N)et for (E)xploration - Published in JOSS (2025)

<code>diverse-seq</code> — Peer-reviewed • Science 93%

<code>diverse-seq</code>: an application for alignment-free selecting and clustering biological sequences - Published in JOSS (2025)

elfe3D v1.0.1 — Peer-reviewed • Science 93%

elfe3D v1.0.1: Modelling with the total electric field approach using finite elements in 3D - Published in JOSS (2025)

AquaCrop.jl — Peer-reviewed • Science 93%

AquaCrop.jl: A Process-Based Model of Crop Growth - Published in JOSS (2025)

SAnTex — Peer-reviewed • Science 93%

SAnTex: A Python-based Library for Seismic Anisotropy Calculation - Published in JOSS (2025)

MDPSolver — Peer-reviewed • Science 93%

MDPSolver: An Efficient Solver for Markov Decision Processes - Published in JOSS (2025)

EKF_CAL — Peer-reviewed • Science 98%

EKF_CAL: Extended Kalman Filter-based Calibration and Localization - Published in JOSS (2025)

corrp — Peer-reviewed • Science 93%

corrp: An R package for multiple correlation-like analysis and clustering in mixed data - Published in JOSS (2025)

popclass — Peer-reviewed • Science 100%

popclass: A Python Package for Classifying Microlensing Events - Published in JOSS (2025)

remotePARTS — Peer-reviewed • Science 93%

remotePARTS: Spatiotemporal autoregression analyses for large data sets - Published in JOSS (2025)

target-methylseq-qc — Peer-reviewed • Science 98%

target-methylseq-qc: a lightweight pipeline for collecting metrics from targeted sequence mapping files. - Published in JOSS (2025)

CUDA-METRO — Peer-reviewed • Science 93%

CUDA-METRO: Parallel Metropolis Monte Carlo for 2D Atomistic Spin Texture Simulation - Published in JOSS (2025)

ez-zarr — Peer-reviewed • Science 98%

ez-zarr: A Python package for easy access and visualisation of OME-Zarr filesets - Published in JOSS (2025)

pooledpeaks — Peer-reviewed • Science 93%

pooledpeaks: Open-Source Fragment Scoring and Analysis Workflow for Population Genetic Analyses of Microsatellite Markers in Pooled Samples - Published in JOSS (2025)

ParquetDB — Peer-reviewed • Science 93%

ParquetDB: A Lightweight Python Parquet-Based Database - Published in JOSS (2025)

AutoEIS — Peer-reviewed • Science 98%

AutoEIS: Automated equivalent circuit modeling from electrochemical impedance spectroscopy data using statistical machine learning - Published in JOSS (2025)

PathSim - A System Simulation Framework — Peer-reviewed • Science 98%

PathSim - A System Simulation Framework - Published in JOSS (2025)

BESMARTS — Peer-reviewed • Science 93%

BESMARTS: A toolkit for data-driven force field design using binary-encoded SMARTS - Published in JOSS (2025)

EXP — Peer-reviewed • Science 98%

EXP: a Python/C++ package for basis function expansion methods in galactic dynamics - Published in JOSS (2025)

Minterpy — Peer-reviewed • Science 93%

Minterpy: multivariate polynomial interpolation in Python - Published in JOSS (2025)

Topography-based surface water modeling in Julia, with support for infiltration and temporal developments — Peer-reviewed • Science 67%

Topography-based surface water modeling in Julia, with support for infiltration and temporal developments - Published in JOSS (2025)

DIFFICE-jax — Peer-reviewed • Science 93%

DIFFICE-jax: Differentiable neural-network solver for data assimilation of ice shelves in JAX - Published in JOSS (2025)

pengWann — Peer-reviewed • Science 98%

pengWann: Descriptors of chemical bonding from Wannier functions - Published in JOSS (2025)

Pydre — Peer-reviewed • Science 100%

Pydre: A Python package for driving simulation data reduction - Published in JOSS (2025)

OPTIMUS — Peer-reviewed • Science 93%

OPTIMUS: A Multidimensional Global Optimization Package - Published in JOSS (2025)

ReadmeReady — Peer-reviewed • Science 93%

ReadmeReady: Free and Customizable Code Documentation with LLMs - A Fine-Tuning Approach - Published in JOSS (2025)

rjaf — Peer-reviewed • Science 95%

rjaf: Regularized Joint Assignment Forest with Treatment Arm Clustering - Published in JOSS (2025)

LongMemory.jl — Peer-reviewed • Science 100%

LongMemory.jl: Generating, Estimating, and Forecasting Long Memory Models in Julia - Published in JOSS (2025)

QuantumACES.jl — Peer-reviewed • Science 98%

QuantumACES.jl: design noise characterisation experiments for quantum computers - Published in JOSS (2025)

DemeterWatch — Peer-reviewed • Science 95%

DemeterWatch: A Java tool to detect Law of Demeter violations in Java collections - Published in JOSS (2025)

COHESIVM — Peer-reviewed • Science 98%

COHESIVM: Combinatorial h+/e- Sample Investigation using Voltaic Measurements - Published in JOSS (2025)

ScatteringOptics.jl — Peer-reviewed • Science 95%

ScatteringOptics.jl: An Interstellar Scattering Framework in the Julia Programming Language - Published in JOSS (2025)

PeakPerformance - A tool for Bayesian inference-based fitting of LC-MS/MS peaks — Peer-reviewed • Science 96%

PeakPerformance - A tool for Bayesian inference-based fitting of LC-MS/MS peaks - Published in JOSS (2024)

ccviR — Peer-reviewed • Science 98%

ccviR: an R package and Shiny app to implement the NatureServe Climate Change Vulnerability Index - Published in JOSS (2024)

plasticparcels — Peer-reviewed • Science 93%

plasticparcels: A python package for marine plastic dispersal simulations and parameterisation development using parcels - Published in JOSS (2024)

GEOS — Peer-reviewed • Science 95%

GEOS: A performance portable multi-physics simulation framework for subsurface applications - Published in JOSS (2024)

MicroFloatingPoints.jl — Peer-reviewed • Science 54%

MicroFloatingPoints.jl: providing very small IEEE 754-compliant floating-point types - Published in JOSS (2024)

QUPS — Peer-reviewed • Science 100%

QUPS: A MATLAB Toolbox for Rapid Prototyping of Ultrasound Beamforming and Imaging Techniques - Published in JOSS (2024)

dsmmR — Peer-reviewed • Science 93%

dsmmR: Estimation and Simulation of Drifting Semi-Markov Models - Published in JOSS (2024)

Fortuna.jl — Peer-reviewed • Science 100%

Fortuna.jl: Structural and System Reliability Analysis in Julia - Published in JOSS (2024)

mathlib — Peer-reviewed • Science 93%

mathlib: A Scala package for readable, verifiable and sustainable simulations of formal theory - Published in JOSS (2024)

Reggae — Peer-reviewed • Science 49%

Reggae: A Parametric Tuner for PBJam, and a Visualization Tool for Red Giant Oscillation Spectra - Published in JOSS (2024)

BiGGer — Peer-reviewed • Science 100%

BiGGer: A Model Transformation Tool written in Java for Bigraph Rewriting in GrGen.NET - Published in JOSS (2024)

MousebreedeR — Peer-reviewed • Science 93%

MousebreedeR: A novel software to assist in the design of breeding schema for complex genotypes of experimental organisms - Published in JOSS (2024)

SpiDy.jl — Peer-reviewed • Science 93%

SpiDy.jl: open-source Julia package for the study of non-Markovian stochastic dynamics - Published in JOSS (2024)

Anime — Peer-reviewed • Science 93%

Anime: Atmospheric and Instrument Models in the Measurement Equation - Published in JOSS (2024)

agweather-qaqc — Peer-reviewed • Science 100%

agweather-qaqc: An Interactive Python Package for Quality Assurance and Quality Control of Daily Agricultural Weather Data and Calculation of Reference Evapotranspiration - Published in JOSS (2024)

GIRFReco.jl — Peer-reviewed • Science 100%

GIRFReco.jl: An Open-Source Pipeline for Spiral Magnetic Resonance Image (MRI) Reconstruction in Julia - Published in JOSS (2024)

https://github.com/jbrea/tabularreinforcementlearning.jl • Science 13%

goFlux — Peer-reviewed • Science 95%

goFlux: A user-friendly way to calculate GHG fluxes yourself, regardless of user experience - Published in JOSS (2024)

https://github.com/lynn-miller/lfmc_from_modis • Science 13%

Live fuel moisture content estimation from MODIS: a deep learning approach

https://github.com/jbrea/rememberingthewhen.jl • Science 26%

MicroTracker.jl — Peer-reviewed • Science 98%

MicroTracker.jl: A Julia package for microbot research - Published in JOSS (2024)

https://github.com/jbrea/jbrea.github.io • Science 13%

NOMAD — Peer-reviewed • Science 49%

NOMAD: A distributed web-based platform for managing materials science research data - Published in JOSS (2023)

RelativisticDynamics.jl — Peer-reviewed • Science 93%

RelativisticDynamics.jl: Relativistic Spin-Orbital Dynamics in Julia - Published in JOSS (2023)

brains-py, A framework to support research on energy-efficient unconventional hardware for machine learning — Peer-reviewed • Science 93%

brains-py, A framework to support research on energy-efficient unconventional hardware for machine learning - Published in JOSS (2023)

guitools • Science 44%

Generates taxonomic abundance from bracken report file

https://github.com/jbrea/spikingequilibriumprop • Science 13%

PyBullet Industrial — Peer-reviewed • Science 100%

PyBullet Industrial: A process-aware robot simulation - Published in JOSS (2023)

https://github.com/jbrea/bayesoptbuilder.jl • Science 13%

https://github.com/jbrea/planningvscompensatorycaching.jl • Science 23%

MultilayerGraphs.jl — Peer-reviewed • Science 98%

MultilayerGraphs.jl: Multilayer Network Science in Julia - Published in JOSS (2023)

https://github.com/jbrea/symmetrysaddles.jl • Science 23%

histoc — Peer-reviewed • Science 93%

histoc: Histocompatibility analysis performed by kidney allocation systems - Published in JOSS (2022)

btllib — Peer-reviewed • Science 98%

btllib: A C++ library with Python interface for efficient genomic sequence processing - Published in JOSS (2022)

GHEtool — Peer-reviewed • Science 98%

GHEtool: An open-source tool for borefield sizing in Python - Published in JOSS (2022)

Accelerating Parallel Operation for Compacting Selected Elements on GPUs — Peer-reviewed • Science 95%

Accelerating Parallel Operation for Compacting Selected Elements on GPUs - Published in JOSS (2022)

NeuralFieldEq.jl — Peer-reviewed • Science 93%

NeuralFieldEq.jl: A flexible solver to compute Neural Field Equations in several scenarios - Published in JOSS (2022)

https://github.com/erictleung/poofsi • Science 23%

:zap: Learn concepts from Nature Methods' series "Points of Significance"

rabpro — Peer-reviewed • Science 100%

rabpro: global watershed boundaries, river elevation profiles, and catchment statistics - Published in JOSS (2022)

https://github.com/assert-kth/mokav • Science 49%

Generating difference exposing tests in Python http://arxiv.org/pdf/2406.10375

https://github.com/erictleung/erictleung.github.io • Science 13%

:memo: Source code for my website, portfolio of projects, and more

LoadProfileGenerator — Peer-reviewed • Science 98%

LoadProfileGenerator: An Agent-Based Behavior Simulation for Generating Residential Load Profiles - Published in JOSS (2022)