Search Results for "patterns"
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Showing 83 open source projects for "patterns"
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AlphaGenome
Programmatic access to the AlphaGenome model
...This repository contains client-side code, examples, and documentation to help you use the AlphaGenome API. AlphaGenome offers multimodal predictions, encompassing diverse functional outputs such as gene expression, splicing patterns, chromatin features, and contact maps. The model analyzes DNA sequences of up to 1 million base pairs in length and can deliver predictions at single-base-pair resolution for most outputs. AlphaGenome achieves state-of-the-art performance across a range of genomic prediction benchmarks, including numerous diverse variant effect prediction tasks. -
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RobotsTxt
The repository contains Google's robots.txt parser
...It implements the core semantics of the Robots Exclusion Protocol: user-agent sections, Allow/Disallow directives, wildcard handling, and precedence rules. The code is optimized for speed and low memory so large crawls can evaluate millions of URLs quickly. It also focuses on correctness—edge cases like overlapping patterns and longest-match resolution are handled consistently. Consumers integrate it to decide whether a specific URL may be fetched by a particular bot name and to respect crawl-delay or sitemaps hints where applicable. The library serves both search-scale crawlers and smaller tools that need a reliable decision engine for polite crawling. -
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Seamly2D
Free and open source pattern design software
Seamly2D enables the design, reuse, and remix of digital sewing patterns for creating bespoke-fit, specialty-sized, and ready-to-wear-sized clothing. Users have the right to utilize, sell, share, and distribute their patterns in any way they choose. * Downloads: https://seamly.io * Support: https://forum.seamly.io * Code: https://github.com/fashionfreedom/seamly2d * License: GPLv3+ -
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A "gumbo" of tools and concepts supporting rich client applications with 2D/3D user interfaces. Expands on the code from the book "3D User Interfaces with Java 3D", and includes a generous contribution of RCP code from Meyer Sound. Recent work includes a Norden bombsight simulator, with terrain rendering based on NASA's WorldWind SDK. For this effort YourKit has generously made available its full-featured Java Profiler (https://www.yourkit.com/java/profiler/index.jsp), which has proved...
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The Most Powerful Software Platform for EHSQ and ESG ManagementChoose from a complete set of software solutions across EHSQ that address all aspects of top performing Environmental, Health and Safety, and Quality management programs.
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Billiards Everything
The Great Periodic Path Hunt at gwtokarsky.github.io
Researchers, Mathematicians and Enthusiasts. Download "Billiards Everything" to discover new periodic billiard paths, an unresolved problem from 1775! Download "Billiards Covers" to see the most current list of periodic paths in triangles. Follow "The Great Periodic Path Hunt" at gwtokarsky.github.io for the latest news. Email tokarsky@ualberta.ca for feedback. -
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UniversalMer
A CLI k-mer counting tool for multiple sizes of k at once.
UniversalMer is a k-mer counting tool for multiple size of k at once. It is available for DNA, RNA, and protein sequences. The program counts and summarizes the exact frequency of all k-mers from 1-mer to a user-defined maximum length (kmax). Analyzing the k-mer spectrum across multiple values of k can be done in seconds. This program is designed for bioinformatics researchers and scientists. -
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Croizat
A software package for quantitative analysis in Panbiogeography
Croizat is a free, user-friendly, cross-platform desktop software package which biologists can use to integrate and analyze spatial data on species or other taxa and to explore geographical patterns in diversity under a panbiogeographic and graph-theoretic approach. -
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Scalar-Defense-System
Scalar Defense using Photon Dark Photon FDM Waves
Scalar Defense leverages wave-like properties of Fuzzy Dark Matter to detect, track & deflect asteroids. Manipulating scalar fields (ϕ) & their interference patterns, system creates controlled gravitational potentials can alter asteroid trajectories. Foundation is the two-field FDM model, allows tuning density fringes via mass & velocity parameters -
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DEVS-Suite Simulator
Component, CA, and CCA models; superdense time, DB repo, testing, etc.
Integrated component-based and cellular automata (CA) Parallel DEVS simulator: https://acims.asu.edu/devs-suite/ OFFERS: 1) synchronized execution & animation, 2) run-time linear/superdense I/O & state trajectories, 3) Action Level Real-Time modeling & simulation, 4) model checking, 5) ABM, 6) CA & composable CA playback, 7) KIB interaction modeling, 8) hierarchical model libraries, 9) Black-Box testing & debugging, 10) PostgreSQL repository, 11) FMU (OpenModelica), 12) OSATE (AADL)... -
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Photon-DarkPhoton-Entanglement
Photon Dark Photon
Primordial Photon–Dark Photon Entanglement https://cosmic-entanglement-visualizer-cop-844bebeb.base44.app/ A research and analysis framework for testing the Photon–Dark Photon Entanglement Hypothesis, analyzing astronomical imaging data, and generating reproducible physics validation results using HST, JWST, and other observatory FITS products. 🚀 Overview This repository provides: Physics Validation Tests that compute predicted P–D entanglement observables. Expected... -
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NuPIC
Numenta platform for intelligent computing
...HTM is a detailed computational theory of the neocortex. At the core of HTM are time-based continuous learning algorithms that store and recall spatial and temporal patterns. NuPIC is suited to a variety of problems, particularly anomaly detection and prediction of streaming data sources. For more information, see numenta.org or the NuPIC Forum. If you want to build the dependent nupic.bindings from source, you should build and install from nupic.core prior to installing nupic (since a PyPI release will be installed if nupic.bindings isn't yet installed). ... -
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TXM
Unicode XML TEI text analysis platform
TXM is a free and open-source cross-platform Unicode & XML based text analysis environment and graphical client, supporting Windows, Linux and Mac OS X. It can also be used online as a J2EE standard compliant web portal (GWT based) with access control built in. DOWNLOAD LATEST VERSION OF TXM : http://textometrie.ens-lyon.fr/spip.php?rubrique61&lang=en TXM offers a comprehensive range of analysis tools (concordances, collocate search, frequency lists, etc.) based on the powerfull CQP... -
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EBSP Indexer
GUI for processing and indexing EBSP from SEMs
EBSP Indexer is a graphical user interface that allows for processing and indexing of Electron backscatter patterns which are generated by scanning electron microscopes. Its goal is to make the rich functionality of the open-source library kikuchipy more accessible to users, without requiring knowledge of python or the library itself. Contribute by using our DOI: https://zenodo.org/record/7925262 -
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tidyverse
Easily install and load packages from the tidyverse
tidyverse is a meta‑package that installs and loads a cohesive suite of R packages designed for data science, sharing underlying design principles, grammar, and data structures. Core components include ggplot2, dplyr, tidyr, readr, purrr, tibble, stringr, forcats, and more. It promotes tidy data workflows and consistency across tasks. -
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BD-Func
Bidirectional Functional Enrichment of Gene Expression Data
BD-Func is an algorithm to predict activation or inhibition of pathways based upon gene expression patterns. If you use BD-Func, please cite: Warden C, Kanaya N, Chen S, and Yuan Y-C. (2013) BD-Func: A Streamlined Algorithm for Predicting Activation and Inhibition of Pathways. peerJ, 1:e159 -
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Perceptron
The birth of modern video feedback art.
...Perceptron is an endless flow of transforming visuals. Perceptron * recursively transforms images and video streams in realtime and produces a combination of Julia fractals, IFS fractals, and chaotic patterns due to video feedback * evolves geometric patterns into the realm of infinite details and deepens the thought * records animations (movies) * saves and opens presets (state files) * loads user photographs or captures screen and webcam input * has user interface based on multiple mouse cursors, and almost the entire keyboard * has multiple windows and fullscreen mode * takes complex geometric transforms as input * applies numerous coloring techniques * smoothly transforms fractals and creates endless psychedelic journeys * resonates with the human perception Visit the Perceptron home page at http://perceptron.sourceforge.net -
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...See the Wiki page for a description of the math conjecture. https://en.wikipedia.org/wiki/Collatz_conjecture The program tests a number of ways for researching various patterns. A white paper is included that describes various results of the research. Also included are a number of data files of results of the program.
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SmartSoft is a framework for developing component-based robotics systems. SmartSoft components are based on a small set of predefined component interaction patterns to strictly enforce component decoupling and to support off-the-shelf reuse.
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GelJ
GelJ is a Java program for the analysis of DNA gel fingerprints images
...Some of the outstanding features of GelJ are functionality for accurate lane- and band-detection, several methods for computing migration models and generating dendrograms, comparison of banding patterns from different experiments, and database support. Citing GelJ: J. Heras, C. Domínguez, E. Mata, and V. Pascual. GelJ – a tool for analyzing DNA fingerprint gel images. BMC Bioinformatics 2015, 16:270 http://doi.org/10.1186/s12859-015-0703-0. You can see more information about GelJ in https://sourceforge.net/p/gelj/wiki/Home/ Several videos explaining the use of GelJ are available in https://sourceforge.net/p/gelj/wiki/Videos/ Please address any question or comment to joheras at gmail.com -
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...The statistical model of MATS calculates the P-value and false discovery rate that the difference in the isoform ratio of a gene between two conditions exceeds a given user-defined threshold. From the RNA-Seq data, MATS can automatically detect and analyze alternative splicing events corresponding to all major types of alternative splicing patterns. MATS handles replicate RNA-Seq data from both paired and unpaired study design. More information can be found at http://rnaseq-mats.sourceforge.net.
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dBEAST
digest BEAST
This code has been used in the study: Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa; PLoS Pathogens 2019 https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1007976 Please note that the code includes test input data that does not necessarily reproduce the results included in the manuscript. -
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A key goal for NEMO is the development of a formal logic (“ontology”) to support data sharing, logic-based queries and mapping/integration of patterns across data from different labs, different experiment paradigms, and different modalities (EEG/MEG)
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Ghawwas_V4
An open source system for Arabic corpora processing
...Frequency list for single word and N-Grams b. Concordance c. Collocation (MI, CHI Squared, LL, T-Score, Z Score, Dice, Log Dice, Weirdness Coefficient) d. Lexical patterns search e. Two corpora frequency profile comparison based on MI, CHI, LL, T-Score, Z Score, Dice, Log Dice, Weirdness Coefficient f. Accept Windows and UTF-8 character encoding g. Accept TXT, DOC, DOCX, RTF and HTML formats h. Export the processing results in CSV file format -
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TimescapeGlobal
a space-time interpolation geostatistical tool
...Including time variability adds further issues to the already complicated field of geostatistical interpolation. On the other hand, most of the distributions of variables used in Earth and environmental sciences show patterns of change over time, not only in space. This tool is a free, open-source software, based on a generalization of the Inverse Distance Weighted algorithm. It outputs three-dimensional, layered discrete models from which time series and equal-time GIS Grid layers can be extracted.
