https://github.com/astropy/saba
A Package which allows astropy to interface with sherpa
https://github.com/bioconductor/organism.dplyr
pdsen-corral
umbrella project to manage the build cycle (continuous integration and stable release) for the PDS EN tools.
ward
Ward is a modern test framework for Python with a focus on productivity and readability.
SlicerSPECTRecon
SlicerSPECTRecon: A 3D Slicer Extension for SPECT Image Reconstruction - Published in JOSS (2024)
https://github.com/cdcgov/tostadas
🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
https://github.com/biocore/emp
Code repository of the Earth Microbiome Project.
https://github.com/bird-house/ansible-wps-playbook
An Ansible playbook for automated deployment of full-stack PyWPS servers.
udef-arp
UDef-ARP was developed by Clark Labs, in collaboration with TerraCarbon, to facilitate implementation of the Verra tool, VT0007 Unplanned Deforestation Allocation (UDef-A).
https://github.com/amazon-science/replay-based-recurrent-rl
Code for "Task-Agnostic Continual RL: In Praise of a Simple Baseline"
https://github.com/alan-turing-institute/hub23-deploy
A repo to manage the Turing BinderHub instance
https://github.com/climateimpactlab/dodola
Containerized application for running individual tasks in a larger, orchestrated CMIP6 bias-adjustment and downscaling workflow.
https://github.com/assert-kth/drr
Tool & data on the correctness of Defects4 patches generated by program repair tools http://arxiv.org/pdf/1909.13694
https://github.com/biomedsciai/histocartography
A standardized Python API with necessary preprocessing, machine learning and explainability tools to facilitate graph-analytics in computational pathology.
https://github.com/amazon-science/llm-code-preference
Training and Benchmarking LLMs for Code Preference.
computational-mechanics
Notebooks and documents to build Computational Mechanics course
https://github.com/ctmm-initiative/ctmmweb
Web app for analyzing animal tracking data, built upon ctmm R package
https://github.com/alleninstitute/swdb_2019_student
A repository for student code for the 2019 Summer Workshop on the Dynamic Brain
https://github.com/alleninstitute/visual_coding_2p_analysis
Visual Coding 2P analysis code
https://github.com/bagustris/two-stage-ser
Repository for paper: Two-stage dimensional emotion recognition by fusing predictions of acoustic and text networks using SVM
https://github.com/danforthcenter/plantcv-tutorial-watershed
watershed tutorial
https://github.com/ccnmaastricht/neuralsynchrony-figureground
Codebase exploring figure-ground segregation in texture stimuli through neural synchrony mechanisms. Contains simulations based on the theory of weakly coupled oscillators, psychophysics experiments, and statistical analyses.
alud
A Go package for deriving Universal Dependencies from Dutch sentences parsed with Alpino
https://github.com/chrisgrieser/alfred-docs-searches
Search hundreds of documentation sites from DevDocs and other sources via Alfred.
agrolib
Agrolib are a set of libraries for agrometeorological modeling and climate analysis. They include a numerical solution for three-dimensional water and heat flow in the soil, water balance, meteorological data interpolation, daily weather generator, radiation budget, snow accumulation and melt, plant development and plant water uptake.
covid19-italy-integrated-surveillance-data
COVID-19 integrated surveillance data provided by the Italian Institute of Health and processed via UnrollingAverages.jl to deconvolve the weekly moving averages.
https://github.com/andreasmadsen/htmlparser-benchmark
Simple benchmark for diffrent htmlparsers using real-life data
multigsea
The `multiGSEA` R package was designed to run a robust GSEA-based pathway enrichment for multiple omics layers.
attune
Tools for tuning optical parametric amplifiers and multidimensional spectrometers.
https://github.com/alleninstitute/mtrain_regimens
Repository to track training stages and regimens for visual behavior
https://github.com/crowdstrike/falconjs
CrowdStrike Falcon API JS library for the browser and Node
https://github.com/alan-turing-institute/whatwhat
A reimagining of nowwhat in OCaml
https://github.com/bluebrain/nexus-search-webapp
The Searchable Knowledge-Graph Application
derfinder
Annotation-agnostic differential expression analysis of RNA-seq data via expressed regions-level or single base-level approaches
BiocSingular
Clone of the Bioconductor repository for the BiocSingular package.
https://github.com/arcticsnow/photo4d
Package to compute point cloud models using photogrammetry from time-lapse imagery
https://github.com/bluebrain/bbp-data-push
CLIs that take in input Atlas Pipeline datasets and push them into Nexus along with a Resource properties payload
https://github.com/bowang-lab/ecg-fm
An electrocardiogram analysis foundation model.
https://github.com/alleninstitute/swdb_2018_tools
A collaborative Python package built by participants of the Summer Workshop on the Dynamic Brain
https://github.com/datamade/searchable-map-template-csv
:earth_americas: You want to put your data on a searchable, filterable map. This is a free, open source template using Leaflet & Turf to help you do it.
https://github.com/awslabs/aws-c-cal
Aws Crypto Abstraction Layer: Cross-Platform, C99 wrapper for cryptography primitives.
singscore
An R/Bioconductor package that implements a single-sample molecular phenotyping approach
https://github.com/complexdatacollective/fresco
Network interviews in the web browser!
adaptivediffusion
[NeurIPS'24] Training-Free Adaptive Diffusion with Bounded Difference Approximation Strategy
https://github.com/cran-task-views/omics
CRAN Task View: Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics
https://github.com/cytoscape/cx
CX serialization and de-serialization in Cytoscape
https://github.com/altaris/noisy-moo
A wrapper-based framework for pymoo problem modification.
https://github.com/alleninstitute/vis
Typescript packages for building big-data visualization tools & components, with examples for a variety of common data types & formats
https://github.com/catalalang/catala-website
Source code for the website of the Catala language
candisc
Visualizing Generalized Canonical Discriminant and Canonical Correlation Analysis
EE509
Applied Environmental Statistics course: Boston University, Earth & Environment 509
https://github.com/apoorvkh/academic-pretraining
$100K or 100 Days: Trade-offs when Pre-Training with Academic Resources
https://github.com/cwwhitney/calibration_app
Materials for the "Calibration Training" Shiny app for University of Bonn
https://github.com/catalyst-cooperative/pudl-usage-metrics
A dagster ETL for collecting and cleaning PUDL usage metrics.
