GitHub
https://github.com/broadinstitute/bmxp
The tools that constitute a nontargeted LCMS metabolomics data processing pipeline, created and used by the Broad Institute Metabolomics Platform.
outset
add zoom indicators, insets, and magnified panels to matplotlib/seaborn visualizations with ease!
unitvelo
UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference
fitz-collection-online
A repository to hold the code for the front end/API of the Fitzwilliam Museum's Collections Explorer
geometricus
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
loghub
A large collection of system log datasets for AI-driven log analytics [ISSRE'23]
academic-tracker
Academic Tracker is a package that can search PubMed, Crossref, ORCID, and Google Scholar for publications given a list of authors or publication citations.
ordinalsimr
R package and Shiny app for simulating ordinal endpoint results. Try it here: https://6fcd1k-pat.shinyapps.io/ordinalsimr/
gfw-api-python-client
Python package for accessing data from Global Fishing Watch APIs
https://github.com/astropy/pytest-astropy-header
pytest plugin to add diagnostic information to the header of the test output
act
Atmospheric data Community Toolkit - A python based toolkit for exploring and analyzing time series atmospheric datasets
ammistability
Additive Main Effects and Multiplicative Interaction Model Stability Parameters
overreact
⚛️📈 Create and analyze chemical microkinetic models built from computational chemistry data. Crafted at the @geem-lab.
sumo-rl
Reinforcement Learning environments for Traffic Signal Control with SUMO. Compatible with Gymnasium, PettingZoo, and popular RL libraries.
matpower
A Python Package for Easy Access to MATPOWER Power System Simulation Package
ActivePathways
Integrative pathway enrichment analysis of multivariate omics data
microfrontend-resources
:fire: A curated list of resources about Micro frontends grouped by types
optimade
Isomorphic TypeScript / JavaScript client to aggregate all the official Optimade providers
https://github.com/bluebrain/neuromorphovis
A lightweight, interactive, extensible and cross-platform framework for building, visualizing and analyzing digital reconstructions of neuronal morphology skeletons extracted from microscopy stacks.
eoreader
Remote-sensing opensource python library reading optical and SAR sensors, loading and stacking bands, clouds, DEM and spectral indices in a sensor-agnostic way.
torch-geometric-signed-directed
PyTorch Geometric Signed Directed is a signed/directed graph neural network extension library for PyTorch Geometric. The paper is accepted by LoG 2023.
pytrack
a Map-Matching-based Python Toolbox for Vehicle Trajectory Reconstruction
climate
The R climate package: an interface for downloading in-situ meteorological (and hydrological) dataset
pyreadstat
Python package to read and write sas, spss and stata files into/from pandas and polars data frames. It is a wrapper for the C library readstat.
pysat
Generalized data analysis workflow via a consistent easy to use interface.
scikit-rmt
Random Matrix Theory library - RMT analysis and simulation in Python
torchdiffeq
Differentiable ODE solvers with full GPU support and O(1)-memory backpropagation.
@stanfordspezi/spezi-web-design-system
Spezi Web Frontend Design System and Reusable Components
ngmaster
In silico multi-antigen sequence typing for Neisseria gonorrhoeae (NG-MAST)
pybel
🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)
pyneuroml
A single package in Python unifying scripts and modules for reading, writing, simulating and analysing NeuroML2/LEMS models.
PyMPDATA v1
PyMPDATA v1: Numba-accelerated implementation of MPDATA with examples in Python, Julia and Matlab - Published in JOSS (2022)
conc
A Python library for efficient corpus analysis, enabling corpus linguistic analysis in Jupyter notebooks.
methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
sdg-queries-evaluation-report
In this study we evaluate the accuracy of our Aurora SDG classification model version 5, to match research papers to the Sustainable Development Goals (SDG's) of the United Nations. The aim of this investigation is to be transparent about the accuracy of the model, because this model might get used in reporting and strategy analysis by University leadership. The measurements are based on a baseline, 'golden set', where researchers of the Aurora universities handpicked publications that relate to an SDG. We measured the Precision and Recall of the Aurora model, and relating it to our previous version of the model, and to the Elsevier SDG model.
ASIMTools
ASIMTools: A lightweight framework for scalable and reproducible atomic simulations - Published in JOSS (2024)
rafcon
RAFCON (RMC advanced flow control) uses hierarchical state machines, featuring concurrent state execution, to represent robot programs. It ships with a graphical user interface supporting the creation of state machines and contains IDE like debugging mechanisms. Alternatively, state machines can programmatically be generated using RAFCON's API.
kgrid
Calculate the required k-point density from the input geometry for periodic quantum chemistry calculations
