https://github.com/cytoscape/cytoscape.js-edgehandles
Edge creation UI extension for Cytoscape.js
photobiologyfilters
R package 'photobiologyFilters' is a collection of spectral transmittance data for more than 300 filters measured in our lab, by collaborators or for which data have been made available by the suppliers for inclussion in this package.
vc2copula
Extends the 'copula' package with families and models from 'VineCopula'.
nortsTest
An R package for checking normality in time series, for my Final master's work
delphi
Framework for assembling causal probabilistic models from text and software.
https://github.com/acdh-oeaw/acdh-django-charts
A django app to explore your data through charts based on Highcharts.js
https://github.com/juliagaussianprocesses/temporalgps.jl
Fast inference for Gaussian processes in problems involving time. Partly built on results from https://proceedings.mlr.press/v161/tebbutt21a.html
svision
Detecting genome structural variants with deep learning in single molecule sequencing
cwlprov
cwlprov: Command line tool and Python API to explore Research Objects containing provenance of Common Workflow Language executions
https://github.com/acdh-oeaw/acdh-transkribus-utils
A python package providing some utility functions for interacting with the Transkribus-API
tensor2tensor
Library of deep learning models and datasets designed to make deep learning more accessible and accelerate ML research.
https://github.com/polyaxon/hypertune
A library for performing hyperparameter optimization
deviate
Python tool for the analysis and visualization of mobile genetic elements
scShapes
A Statistical Framework for Modeling and Identifying Differential Distributions in Single-cell RNA-sequencing Data
https://github.com/amueller/introduction_to_ml_with_python
Notebooks and code for the book "Introduction to Machine Learning with Python"
sdg-indicators-usa
U.S. National Reporting Platform for the Sustainable Development Goals
SPLICE
An individual claim simulator of Synthetic Paid Loss and Incurred Cost Experience (SPLICE)
gromacs
Forked from the canonical GROMACS distribution, this repository supports the latests and greatest features of gmxapi that are not otherwise available.
https://github.com/bioconductor/bioconductor.org
Source code for the Bioconductor website
https://github.com/bytedance/res-adapter
[AAAI 2025] Official codes of "ResAdapter: Domain Consistent Resolution Adapter for Diffusion Models".
spacegraphcats
Indexing & querying large assembly graphs -- in space, no one can hear you miao!
cloud-carbon-footprint
Cloud Carbon Footprint is a tool to estimate energy use (kilowatt-hours) and carbon emissions (metric tons CO2e) from public cloud usage
TENET
R package for TENET (Tracing regulatory Element Networks using Epigenetic Traits) to identify key transcription factors
astred
An easy-to-use library to linguistically compare one sentence and its words to another, in the same language or a different one. For instance useful for comparing a translation with the original text, to find differences and similarities between two different translations, or to see how a machine translation differs from a reference translation.
pycollocation
Python package for solving initial value problems (IVP) and two-point boundary value problems (2PBVP).
https://github.com/chrisgrieser/nvim-genghis
Lightweight and quick file operations without being a full-blown file manager.
https://github.com/citation-js/plugin-quickstatements
Citation.js plugin to output QuickStatements
dmbon-assistant
webtop ui and backend api to make structured datacrates based of rocrate.
https://github.com/alleninstitute/mindscope_utilities
Utilities for loading, manipulating and visualizing data from the Allen Institute Mindscope program
neotoma_lakes
A repository for managing the matching of lake data between national hydrographic databases and Neotoma records.
multianalyzer
Rebinning of powder diffraction data taken with multiple analyzer crystals and a large area detector
https://github.com/astropy/astropy-project
Documents and policies regarding the Astropy Project as a whole.
https://github.com/albumentations-team/albumentations_examples
Augmentations usage examples for albumentations library
https://github.com/broadinstitute/long-read-pipelines
Long read production pipelines
https://github.com/seung-lab/fastremap
Remap, mask, renumber, unique, and in-place transposition of 3D labeled images. Point cloud too.
phys2denoise
A toolbox and collection of scripts to prepare physiology data for fMRI denoise
https://github.com/ruvnet/ruv-fann
A blazing-fast, memory-safe neural network library for Rust that brings the power of FANN to the modern world.
https://github.com/bigscience-workshop/megatron-deepspeed
Ongoing research training transformer language models at scale, including: BERT & GPT-2
https://github.com/broadinstitute/scp-ingest-pipeline
File Ingest Pipeline for Single Cell Portal
https://github.com/chaoss/website
(Some of the) Content of http://chaoss.community website.
contrack
Contour Tracking of circulation anomalies (atmospheric blocking, cyclones and anticyclones) in weather and climate data
https://github.com/chaoss/wg-dei
CHAOSS Working Group focused on Diversity, Equity, and Inclusion metrics
neoepiscope
predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
https://github.com/cbg-ethz/v-pipe
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
https://github.com/aspuru-guzik-group/mermaid
Multimodal aid for mining of chemical reactions from PDFs
gbif.range
An R package to generate species range maps based on ecoregions and a user-friendly GBIF wrapper
FIELDimageR
FIELDimageR: A R package to analyze orthomosaic images from agricultural field trials. This package is a compilation of functions to analyze pos-mosaicking images from research fields, and allows to: crop the image; remove soil effect; build vegetation indices; rotate the image; build the plot shapefile; extract information for each plot; and evaluate stand count, canopy percentage, and plant height.
https://github.com/yoshoku/hnswlib-node
hnswlib-node provides Node.js bindings for Hnswlib
https://github.com/ctuavastlab/mill.jl
Build flexible hierarchical multi-instance learning models.
microbial-amplicon-analysis
A lesson teaching analysis of microbial amplicon data
https://github.com/alleninstitute/skeleton_plot
tools for plotting swc and meshparty skeletons