https://github.com/becavin-lab/bacnet
BACNET is a Java based platform to develop website for multi-omics analysis
https://github.com/aibasel/pyperplan
A lightweight STRIPS planner written in Python.
slise
Robust regression algorithm that can be used for explaining black box models (Python implementation)
https://github.com/clima/scampy
A single column model of atmospheric boundary layer turbulence and clouds
antaresread
Import, manipulate and explore the results of an Antares simulation
preprint-repro-jpcc2020
Reproducible manuscript containing all data and code behind J. Phys. Chem. C 2020, 124, 11 6395–6404
https://github.com/bytehamster/fips
A very simple and fast implementation of perfect hashing through fingerprinting.
https://github.com/compnet/nanet
Extraction and analysis of character networks from comics, bandes dessinées and such
pepper-grinder
A desktop GUI for the Pepper conversion framework for linguistic data.
https://github.com/cwwhitney/burkinaexample
DA tools example using the supplementary from Lanzanova et al (2019)
https://github.com/baeda-polito/timeseriesenergybenchmarking
A shiny app to perform timeseries-based external energy benchmarking on annual electrical energy consumption of a whole building.
https://github.com/caimeng2/uscityurl
A complete and manually verified collection of the web addresses of all 19518 municipalities in the United States
https://github.com/amlalejini/psb-cpp
C++ implementations of the Program Synthesis Benchmark Suite (PSB)
https://github.com/broadinstitute/shared-workflows
GitHub Action workflows that can be shared by multiple repositories
scgraph
Generate real world ocean, road, and rail routes with reasonable distances all with no dependencies.
lick
Package that uses a Line Integral Convolution library to clothe a 2D field (ex: density field) with a LIC texture, given two vector fields (ex: velocity (vx, vy))
https://github.com/bioconductor/biocbaseutils
https://github.com/google-deepmind/simulation_streams
Simulation Streams is a programming paradigm designed to efficiently control and leverage Large Language Models (LLMs) for complex, dynamic simulations and agentic workflows.
https://github.com/becksteinlab/mdanalysis-with-dask
Benchmarking MDAnalysis with dask.
https://github.com/chains-project/dirty-waters-action
Break the build if your supply chain is dirty
https://github.com/citiususc/owl2yarrrml
Basic script that extracts information from the ontology to generate a YARRRML template
cod-with-yolov8-segmentation
Main Repository for the Paper Titled "Enhanced Camouflaged Object Detection for Agricultural Pest Management: Insights from Unified Benchmark Dataset Analysis"
https://github.com/clinical-genomics/trailblazer
Keep track of and manage analyses
DEsingle
Homepage: https://miaozhun.github.io/DEsingle. Bioconductor page: https://bioconductor.org/packages/DEsingle.
https://github.com/bonsai-rx/machinelearning
Bonsai Library containing reactive infrastructure for machine learning
gsw-r
R implementation of the Thermodynamic Equation Of Seawater - 2010 (TEOS-10)
jiebaR
Chinese text segmentation with R. R语言中文分词 （文档已更新 🎉 ：https://qinwenfeng.com/jiebaR/ )
gaml
Genetic Algorithm Machine Learning (GAML) software package for automated force field parameterization.
WASP
WAvelet System Prediction [Jiang, Z., Sharma, A., & Johnson, F. (2020). Refining Predictor Spectral Representation Using Wavelet Theory for Improved Natural System Modeling. Water Resources Research, 56(3), e2019WR026962.]
https://github.com/csinva/gan-vae-pretrained-pytorch
Pretrained GANs + VAEs + classifiers for MNIST/CIFAR in pytorch.
sdtm.oak
An EDC and Data Standard agnostic SDTM data transformation engine that automates the transformation of raw clinical data in ODM format to SDTM based on standard mapping algorithms
https://github.com/adrn/makecite
Generate latex + bibtex citation commands by looking at what packages are imported
reviews
A terminal UI dashboard to monitor requests for code review across Github and Gitlab repositories.
mocapnet
We present MocapNET, a real-time method that estimates the 3D human pose directly in the popular Bio Vision Hierarchy (BVH) format, given estimations of the 2D body joints originating from monocular color images. Our contributions include: (a) A novel and compact 2D pose NSRM representation. (b) A human body orientation classifier and an ensemble of orientation-tuned neural networks that regress the 3D human pose by also allowing for the decomposition of the body to an upper and lower kinematic hierarchy. This permits the recovery of the human pose even in the case of significant occlusions. (c) An efficient Inverse Kinematics solver that refines the neural-network-based solution providing 3D human pose estimations that are consistent with the limb sizes of a target person (if known). All the above yield a 33% accuracy improvement on the Human 3.6 Million (H3.6M) dataset compared to the baseline method (MocapNET) while maintaining real-time performance
https://github.com/comic/evalutils
evalutils helps users create extensions for grand-challenge.org
https://github.com/cqcl/phir
PHIR (PECOS High-level Intermediate Representation) Spec and data model
aricode
R package for computation of (adjusted) rand-index and other such scores
auto-mhm-test-domains
Repository with an example workflow to run mHM with its test data, using containers
https://github.com/bluebrain/vascpy
Python library for reading, writing, and manipulating large-scale vasculature graphs.
islatu
islatu: A Python package for the reduction of reflectometry data - Published in JOSS (2022)
https://github.com/colinsauze/pi_cluster
A Raspberry Pi cluster for Science Week demos and teaching HPC to students.
https://github.com/alleninstitute/drcme
Dimensionality-reduction and classification for morphology and electrophysiology
climate-informatics-2024-ae
Artefact evaluation (AE) of research objects submitted to Climate Informatics 2024
https://github.com/csdms/jupyterhub-management
Files for managing the collection of JupyterHubs at CSDMS
https://github.com/broadinstitute/mdl-workflows
Workflow, utilities and other artefacts developed by or for the Methods Development Lab at the Broad Institute
https://github.com/douglasneuroinformatics/opendatacapture
An electronic data capture platform for administering remote and in-person clinical instruments
https://github.com/cahya-wirawan/rwkv-tokenizer
A fast RWKV Tokenizer written in Rust
MiMA
Model of an idealized Moist Atmosphere: Intermediate-complexity General Circulation Model with full radiation
https://github.com/cmgmyr/laravel-messenger
Simple user messaging package for Laravel
https://github.com/alan-turing-institute/uatk-spc
Synthetic Population Catalyst
https://github.com/google-deepmind/lm_act
LMAct: A Benchmark for In-Context Imitation Learning with Long Multimodal Demonstrations
pytorch-practical-training
pratrical crash course on pytorch by reproducing some published biology-related deep-learning models
specify7
An open-source platform for managing biological and geological collections.
https://github.com/awslabs/amazon-sqs-java-extended-client-lib
An extension to the Amazon SQS client that enables sending and receiving messages up to 2GB via Amazon S3.
global-canopy-height-model
This repository contains the code used in the paper: A high-resolution canopy height model of the Earth. Here, we developed a model to estimate canopy top height anywhere on Earth. The model estimates canopy top height for every Sentinel-2 image pixel and was trained using sparse GEDI LIDAR data as a reference.
https://github.com/astropy/astrowidgets
*PRE-ALPHA*/heavy dev. Jupyter widgets leveraging the Astropy ecosystem
https://github.com/janosh/matterviz
Interactive browser visualizations for materials science: periodic tables, 3d crystal structures, MD trajectories, heatmaps, scatter plots, histograms.
https://github.com/lrz-badw/avina
API bindings, CLI application and API-backend written in Rust for LRZ-specific features of the Openstack-based LRZ Compute Cloud.
https://github.com/aim-uofa/segprompt
Official Implementation of ICCV 2023 Paper - SegPrompt: Boosting Open-World Segmentation via Category-level Prompt Learning
hydpy
A framework for the development and application of hydrological models based on Python
https://github.com/bat/monotonicsplines.jl
[WIP] High performance monotonic splines in Julia