GitHub
AbstractAlgebra
Generic abstract algebra functionality in pure Julia (no C dependencies)
KolmogorovArnold
Julia implementation of the Kolmogorov-Arnold network with custom gradients for fast training.
oaebu-workflows
Telescopes, Workflows and Data Services for the 'Book Analytics Dashboard Project (2022-2025)', building upon the project 'Developing a Pilot Data Trust for Open Access eBook Usage (2020-2022)'
ia-webscraping
An AWS workflow for collecting webpages from the Internet Archive
ile-de-france
An open synthetic population of Île-de-France for agent-based transport simulation
mqt.qao
MQT Quantum Auto Optimizer - A MQT Tool for Solving Optimization Problems with Quantum Computers
py-dataset
Python package of dataset (https://github.com/caltechlibrary/dataset) for working with JSON objects as collections on disc
pymunk
Pymunk is a easy-to-use pythonic 2d physics library that can be used whenever you need 2d rigid body physics from Python
synthetic-zariski
Latex documentation of our understanding of the synthetic /internal theory of the Zariski-Topos
dryad
Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.
pymccrgb
pymccrgb: Color- and curvature-based classification of multispectral point clouds in Python - Published in JOSS (2019)
pyiron_base
Core components of the pyiron integrated development environment (IDE) for computational materials science
awesome-transit
Community list of transit APIs, apps, datasets, research, and software :bus::star2::train::star2::steam_locomotive:
spezi
Open-source framework for rapid development of modern, interoperable digital health applications.
rsofun
Implements the Simulating Optimal FUNctioning framework for site-scale simulations of ecosystem processes, including model calibration. It contains Fortran 90 modules for the P-model, SPLASH, and BiomeE models.
OceanSpy
OceanSpy: A Python package to facilitate ocean model data analysis and visualization - Published in JOSS (2019)
GasChromatographySimulator.jl
GasChromatographySimulator.jl - Published in JOSS (2022)
reemission
Re-Emission is a collection of methods for calculating GHG emisisons from reservoirs
spilterlize_integrate
A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from next-generation sequencing (NGS) experiments (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including confounding factor analysis and diagnostic visualizations.
momentuHMM
Maximum likelihood analysis Of animal MovemENT behavior Using multivariate Hidden Markov Models
pyhpc-benchmarks
A suite of benchmarks for CPU and GPU performance of the most popular high-performance libraries for Python :rocket:
detectree2
Python package for automatic tree crown delineation based on the Detectron2 implementation of Mask R-CNN
alignment-handbook
Robust recipes to align language models with human and AI preferences
ezflow
A modular PyTorch library for optical flow estimation using neural networks
https://github.com/cbg-ethz/cowwid
Procedure used for the surveillance of SARS-CoV-2, RSV and Influenza genomic variants in wastewater.
hypermat
Hyperelastic formulations using an algorithmic differentiation with hyper-dual numbers in Python.
ckanext-query-dois
A CKAN extension that creates DOIs for queries on resources.
flashlight-text
Text utilities, including beam search decoding, tokenizing, and more, built for use in Flashlight.
ckanext-attribution
A CKAN extension that adds support for complex attribution.
awesome-open-geoscience
Curated from repositories that make our lives as geoscientists, hackers and data wranglers easier or just more awesome
coolpuppy
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
ControlSystems
A Control Systems Toolbox for Julia
https://github.com/althonos/pyopal
Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.
udocker
A basic user tool to execute simple docker containers in batch or interactive systems without root privileges.
carbon_capture_ml
Survey of all published Carbon Capture ML papers, data, code and supplemental materials for the benefit of all humanity
icub-gazebo-grasping-sandbox
A public sandbox for simulating grasping in Gazebo with the iCub humanoid
mixscape_seurat
A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq read-out (scCRISPR-seq) powered by the R package Seurat's method Mixscape.
polyphase-filter-bank-generator
This code generates the filter weights for polyphase filter banks with arbitrary numbers of channels, and with configurable windows.
mapmos
Building Volumetric Beliefs for Dynamic Environments Exploiting Map-Based Moving Object Segmentation (RAL 2023)
miplearn
Framework for solving discrete optimization problems using a combination of Mixed-Integer Linear Programming (MIP) and Machine Learning (ML)
manoptexamples.jl
🏔️⛷️ ManoptExamples.jl – A collection of research and tutorial example problems for Manopt.jl
https://github.com/py-why/dowhy
DoWhy is a Python library for causal inference that supports explicit modeling and testing of causal assumptions. DoWhy is based on a unified language for causal inference, combining causal graphical models and potential outcomes frameworks.
loopstructural
LoopStructural is an open-source 3D structural geological modelling library.
SciMLSensitivity
A component of the DiffEq ecosystem for enabling sensitivity analysis for scientific machine learning (SciML). Optimize-then-discretize, discretize-then-optimize, adjoint methods, and more for ODEs, SDEs, DDEs, DAEs, etc.
codonu
A python project for analysis of codon usage for gene or genome analysis
libcommute
A quantum operator algebra domain-specific language and exact diagonalization toolkit for C++11/14/17
dmriprep
dMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse dMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.
Quartet
R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)
neuroconv
Create NWB files by converting and combining neural data in proprietary formats and adding essential metadata.
paper_bergonti_2022_tro_kinematics-control-morphingcovers
Supplementary Material "Modeling and Control of Morphing Covers for the Adaptive Morphology of Humanoid Robots" published in IEEE Transactions on Robotics 2022
regioncode
Software for converting regional administrative codes (China) over years
spatialwarnings
An R package to compute spatial early-warning signals of ecosystem degradation
