GitHub
hicup-plus
Hi-C data processing pipeline (with Dragen, HiSAT2, or STAR aligner)
earnings
Equity earnings Python package (confirmed calendar, news articles, earnings transcripts, ...)
fsquadra
Fast detection of repackaged Android applications based on the comparison of resource files included into the package.
tsdetect
TSDetect is an open-source test smell detection tool. TSDetect is available as an IntelliJ plugin and command-line tool.
icse-seip2025-anomaly-detector-public
This repository contains the code implementation for the ICSE SEIP 2025 paper titled "Anomaly Detection in Large-Scale Cloud Systems: An Industry Case and Dataset."
how-to-doc-guidelines
How-to use the Australian BioCommons documentation guidelines
pratical-session-nlp-for-one-health-murdoch-mood
Pratical session NLP For One Health - Murdoch Mood
highlighting-errors-and-correcting-hec-
This code walks the user through the process of correcting training data labels and cutting out erroneous data
eucanscreenwp5_demo_aspire
Demo version for the 2025_02_06 meeting. The tools are shown with an example model and a simple R script.
tiapn-template
Template para a disciplina de TI: APLICAÇÕES PARA PROCESSOS DE NEGÓCIOS
clubes_de_ciencias_sdms
Material for 1 week course in species distribution modeling using R notebooks, MaxEnt, and GIS packages.
perihpx
Implementation of finite element and finite difference approximation of Nonlocal models
pmv-si-2023-2-pe5-t4-t5-grp04
pmv-si-2023-2-pe5-t4-t5-grp04 created by GitHub Classroom
bua-vivo-ontology-extensions
Extensions to VIVO ontologies describing entities in the German academic domain
mapping-pipeline
This repo will combine all the steps of mapping EHR data to the CAPACITY registry in one big docker-compose file
kms-nl
tekstboek Kwantitatieve Methoden en Statistiek (Nederlandstalige versie, NL), beschikbaar via https://hugoquene.github.io/KMS-NL/
retrieveseq
RetrieveSeq is a GUI application that performs batch download of how many gene sequences you wish from Ensembl database. Mind you: this application is still under development. Our goal is to increase its functions, as well as provide more database options.
mspconverter
A package to convert tandem mass spectra files from MSP to MGF format
https://github.com/alberto-santini/kpgf
The 0-1 Knapsack Problem with Group Fairness
https://github.com/alcrene/emdcmp
Original implementation of the EMD (empirical model discrepancy) model comparison criterion
https://github.com/alexandrovlab/sigprofilersimulator
SigProfilerSimulator allows realistic simulations of mutational patterns and mutational signatures in cancer genomes. The tool can be used to simulate signatures of single point mutations, double point mutations, and insertion/deletions. Further, the tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
https://github.com/algebraicjulia/decapodes.jl
A framework for composing and simulating multiphysics systems
https://github.com/algebraicjulia/acsets.jl
ACSets: Algebraic databases as in-memory data structures
https://github.com/aliireza/slice-aware
Slice-aware Memory Management - Exploiting NUCA Characteristic of LLC in Intel Processors
https://github.com/alleninstitute/patchseq_human_l1
supporting data and code for human L1 patchSeq manuscript
https://github.com/allfed/allfed-repository-template
Use this as a template for a new project: https://medium.com/programming-lite/repository-templates-in-github-why-how-75b1d1bd43f2
https://github.com/allfed/water-access
Global analysis of freshwater access by walking or cycling in the event of catastrophic infrastructure loss.
https://github.com/aloftdata/bird-migration-flow-visualization
Bird migration flow visualization
https://github.com/alondmnt/joplin-plugin-tag-navigator
A PKM system to organise, search, browse and convert inline tags, front matter and tasks in Joplin
https://github.com/amazon-science/job-posting-structure
Extract structured information from job postings.
https://github.com/amazon-science/wqa-multi-sentence-inference
This repository contains code used for our Multi Sentence Inference NAACL'22 paper.
https://github.com/amazon-science/recode
Releasing code for "ReCode: Robustness Evaluation of Code Generation Models"
https://github.com/amazon-science/latticealgorithms.jl
Algorithms to solve lattice problems in Julia
https://github.com/amber-md/cpptraj
Biomolecular simulation trajectory/data analysis.
https://github.com/amider-dev/exceltoxml
エクセルで入力されたツリー構造のデータをスキーマに従ってXMLファイルへ変換する。共通・非共通項目を持つ複数のXMLファイルを一括生成できる。Convert tree-structured datasets described in Excel table into multiple XML files following the schema.
https://github.com/amoneva/code_papers
A repository of R code used for analysis in scientific papers.
https://github.com/ampliconsuite/ec3d
Reconstruct the three-dimensional structure of extrachromosomal DNA
https://github.com/amrex-combustion/pelec
An AMR code for compressible reacting flow simulations
https://github.com/amrex-combustion/pelephysics
A collection of physics databases and implementation code for use with the Pele suite of of codes
https://github.com/anastassiavybornova/schelling-reloaded
Background material for the project "You Don't Have to Live Next to Me: A Critical Review of the Schelling Model and Its Reception"
https://github.com/andresgur/muse_project
Scripts to deal with some subtleties regarding MUSE data
https://github.com/anikfal/atmospheric_science
Codes and solutions for atmospheric data and modeling
https://github.com/anselmoo/useful-optimizer
A dedicated set of optimization algorithms for numeric problems.
https://github.com/anton-bushuiev/proteinttt
Training on test proteins improves fitness, structure, and function prediction
https://github.com/antsx/antsrnet
Medical image analysis framework merging ANTsR and deep learning
https://github.com/ap6yc/audeyart
Learning repo for Audrey and writing FuzzyART from scratch.
https://github.com/ap6yc/cfar
This repository is a workplace for the upcoming "Analysis of Catastrophic Forgetting and Adaptive Resonance Theory Algorithms" paper.
https://github.com/appfl/appfl-scifm
APPFL Demo for Federated Learning Tutorial at SciFM
https://github.com/aradfarahani/awesome-geophysics
Awesome Geophysics is a community-curated resource offering essential tools, datasets, and educational materials for geophysical exploration. It’s designed to empower students, researchers, and professionals to analyze data, model Earth processes, and stay connected with the latest industry trends.
https://github.com/aria-systems-group/sym_quant_reactive_synth
Symbolic Regret synthesis and graph search
https://github.com/arkadiusz-jedrzejewski/norm-formation-m
Matlab scripts used to analyze an agent-based model (ABM) used to study the impact of symmetric and nonsymmetric conformity functions on decision-making processes.
https://github.com/arkokupski-wat/hypothesis-of-cyclic-black-hole-eruptions-in-higher-dimensional-geometry
Unified Cyclic Black Hole Eruption Hypothesis: Proposes that extreme densities trigger matter-antimatter conversion, powering cosmic explosions via temporary event horizon loss. Emergent gravity arises from 5D spacetime tension between matter/antimatter branes. Predicts unique gamma-ray profiles and eruption cyclicity (T ∼ M/Ṁ).
https://github.com/arkokupski-wat/hypothesis-of-emergent-gravity-from-substrate-phase
The Emergent Gravity from Substrate Phase Hypothesis Core Idea: This hypothesis proposes that spacetime and matter are not fundamental but represent different phase states of a single, underlying entity—the Substrate.
https://github.com/arkokupski-wat/big-bang-as-a-detonation-explosive-material
The core mechanism is matter-antimatter annihilation, which acts as the engine of the cosmos. However, the model posits that annihilation does more than just release energy in the form of photons; it is the primary process responsible for generating spacetime itself and endowing it with an expansive property.
https://github.com/arkokupski-wat/asymmetric-spacetime-disk
A 5D geometric model unifying dark energy and matter-antimatter asymmetry. Predicts Hubble constant H 0 ≈ 67 H 0 ≈67 km/s/Mpc without dark energy