Search Results for "index data"
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Showing 38 open source projects for "index data"
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1
kallisto
Near-optimal RNA-Seq quantification
kallisto is a program for near-optimal quantification of transcript abundances from RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. It is based on the idea of using pseudoalignment to quickly determine reads and targets’ compatibility, with no need for alignment. According to benchmarks done on a Mac desktop computer, kallisto can quantify 30 million human bulk RNA-seq reads in less than 3 minutes with just the read sequences and a transcriptome index, that in itself can take more than 10 minutes to build. ... -
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PaperQA2
High accuracy RAG for answering questions from scientific documents
PaperQA2 is a package for doing high-accuracy retrieval augmented generation (RAG) on PDFs or text files, with a focus on the scientific literature. See our recent 2024 paper to see examples of PaperQA2's superhuman performance in scientific tasks like question answering, summarization, and contradiction detection. In this example we take a folder of research paper PDFs, magically get their metadata - including citation counts and a retraction check, then parse and cache PDFs into a... -
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elasticsearc-php
PHP low-level client for Elasticsearch
Introducing Elasticsearch DSL library to provide objective query builder for Elasticsearch bundle and elasticsearch-php client. You can easily build any Elasticsearch query and transform it to an array. This agnostic package is a lightweight wrapper on top of the Elasticsearch PHP client. Its main goal is to allow for easier structuring of queries and indices in your application. It does not want to hide or replace the functionality of the Elasticsearch PHP client. Feature complete, object... -
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Data Envelopment Analysis using Stata
Develop a user written Data Envelopment Analysis package in Stata.
The goal of this project is to develop a Data Envelopment Analysis(DEA) program using Stata programming language. This is the replacement of "deastata" project that we maintained for the purpose of version management. We call the program package "DEAS" which stands for Data Envelopment Analysis using Stata. DEAS covers the basic models of DEA and extensions including CCR, BCC, SBM, Super-efficiency Model, Allocative Model(Profit, Revenue, Cost), (Global) Malmquist Productivity Index Model, Imprecise DEA, FDH, Additive Model, Virtual Price Model, linear programming(lp), mixed integer linear programming(MILP), and more... -
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Weather Cast
A desktop weather app powered by AI
Weather app is a desktop weather app for Windows OS that shows detailed weather information for the searched city. The dashboard shows the current temperature of the city, description of temperature, pressure, wind, humidity, dew point, uv index, local time, air pollution index. -
6
RSM
Radiation Spectrum Method : a modal BPM (Beam Propagation Method)
RSM (Radiation Spectrum Method) is a 2D rigorous tool to solve the Maxwell equations for the propagation of light in integrated optics or photonics devices. It makes use of an EigenMode Expansion method (EME) to solve the electromagnetic problem. This software running on Windows and MacOS comes with a GUI that permits to define with the aid of files or scripts the arbitrary and complex geometry of the waveguide. Of that way any waveguide geometry can be handled. Several plots are available... -
7
GB PavementMat
An AI-based software for prediction of pavement material properties
During pavement quality control, numerous laboratory tests such as California Bearing Ratio (CBR), Proctor compaction test, and Plasticity Index (PI) are conducted to evaluate material performance and suitability. GB PavementMat leverages advanced AI-based models developed using artificial neural networks to accurately predict these critical properties directly from sieve analysis data. This significantly reduces laboratory testing time, cost, and delays while maintaining high reliability. ... -
8
33
A project on topography and weather comparison
33 starts out to gather topographic information to compare different locations on key measures like Height Above Sea Level, Geographical Latitude, Aspect (ST_Aspect), Slope (ST_Slope), Terrain Ruggedness Index (TRI, ST_TRI/ST_Roughness), Topographic Position Index (TPI, ST_TPI), or Hill Shade (ST_HillShade). Ultimately intended to make a comparing decision on suitability for agriculture. We will see how far we get or if we surpass it even, e.g with weather data and more. Why 33 as the name? Even though the answers we could get from the project might be very important, they won't be "The Answer to the Ultimate Question of Life, the Universe, and Everything", so not quite 42. ... -
9
miRDeep*
MiRDeep*
Please cite: An, J., Lai, J., Lehman, M.L. and Nelson, C.C. (2013) miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res, 41, 727-737. We will create index for you if you tell us your interested species (j.an@qut.edu.au). download command line version "MDS_command_line_Vxx.zip" clicking "Browse All Files" please find miRPlant in sourceforge for plant miRNA prediction. -
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GromacsProSuite
Graphical User Interface for Gromacs
This tool is an integrated graphical interface that simplifies molecular dynamics simulations using Gromacs. It provides a structured, tab-based environment to set up, execute, and analyze simulations data without complex command-line operations. The software automates tasks such as topology generation, solvation, ion addition, minimization, equilibration, and production runs while executing GROMACS commands in the background. Built-in monitoring tracks CPU, RAM, and disk usage to ensure... -
11
SPINA
Structure parameter inference approach for endocrine feedback control
SPINA is software for the rapid, reliable and accurate determination of constant structure parameters of endocrine feedback control systems. It is a class of static function tests that require nothing more than steady-state concentrations of hormones or metabolites obtained in vivo. The first version of this cybernetic approach had been developed for the evaluation of the functional status of the thyroid gland, i.e. thyroid's secretory capacity (gain of thyroid, GT or SPINA-GT) and sum... -
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QUCAS-Quantum-Cosmology-Integration
NOTICE OF CONSOLIDATION & PARTNERSHIP PENDING As of April 2026, the 20
NOTICE OF CONSOLIDATION & PARTNERSHIP PENDING As of April 2026, the 20 pipelines of the QCAUS/PDPBioGen suites are undergoing consolidation for high-scale institutional research. Core 'Ford 2026' algorithms remain the proprietary IP of the Ford Peace and Justice Foundation. Academic users at partner institutions are currently performing validation; all other commercial inquiries must contact the author License: Dual 🔬 Overview A complete computational framework for cosmological... -
13
Image16
Image viewer/editor specialized in astrophotography 16bits processing
Opens/saves TIF, FITS, PNG, XISF, PXM, RAW, JPG, XCF, PSD, WEBP. AsinH, Sqrt, Ln, Exp and Sqr stretching, HSL and RGB adjusting, Levels and Curves adjusting and Background Extraction for Color Balance, Flatness and Gradient Correction. Arithmetic between images. Resizing and croping. Color Balance based on background, selection or stars B-V (after platesolving). Debayering/Bayering. Inversion, mirroring, rotation, barrel/pincushion correction. RGB alignment/shifting. Erode, Dilate, ...... -
14
whiteboxgui
An interactive GUI for WhiteboxTools in a Jupyter-based environment
...WhiteboxTools also contains advanced tooling for spatial hydrological analysis (e.g. flow-accumulation, watershed delineation, stream network analysis, sink removal), terrain analysis (e.g. common terrain indices such as slope, curvatures, wetness index, hillshading; hypsometric analysis; etc. -
15
Function Point Analysis
Progressive Function Point Analysis Workbook in Excel
Progressive Function Point Analysis Book Released: Print Copy: http://www.amazon.com/Progressive-Function-Point-Analysis-Estimation/dp/1502354160 EBook: http://www.amazon.com/dp/B00NH0MMAG Please support this project and its future releases ! Managers provide the architect/teams with project requirements. The architect/team returns detailed task list with estimated man hours per task making life easier for Project Managers with less guesstimates and proper business/technical process... -
16
GenoCline
GenoCline is a free Java software for genetic cline analysis
...Parameterization of a cline: orientation, Pearson’s product-moment correlation coefficient, linear and sigmoid regression and coefficient of determination. Graphical representation of the cline. Confidence limits. Spatial autocorrelation. Moran's index. Isolation by distance. Exponential regression. Correlation Fst/Distance. Centroid method. Cline's expected vs. predicted heterozygosity. MDS. Sammon projection. Geographical distances. Fst distances. Export data to Arlequin, Phylip, Past and Poptree. User-friendly input data. -
17
libpostal
A C library for parsing/normalizing street addresses around the world
A C library for parsing/normalizing street addresses around the world. Powered by statistical NLP and open geo data. libpostal is a C library for parsing/normalizing street addresses around the world using statistical NLP and open data. The goal of this project is to understand location-based strings in every language, everywhere. Addresses and the locations they represent are essential for any application dealing with maps (place search, transportation, on-demand/delivery services, check-ins, reviews). ... -
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The purpose of GeoRaptor project is to extend Oracle SQL Developer with additional functionality for database administrators or developers working with Oracle Spatial data. Dear Users, A port to version 4.x of SQL Developer is being attempted. It is not simple due to the lack of development resources. Please keep using GeoRaptor with SQL Developer 3.x until the new version is available. Thanks. Simon Greener
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19
GMOL
A tool for 3D genome structure visualization
GMOL is an application designed to visualize genome structure in 3D. It allows users to view the genome structure at multiple scales, including: global, chromosome, loci, fiber, nucleosome, and nucleotide. This software was built upon the pre-existing Jmol package by Prof. Cheng's group. The software is developed in Prof. Jianlin Cheng's Bioinformatics, Data Mining and Machine Learning Laboratory in the Computer Science Department at the University of Missouri - Columbia, USA. The project... -
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mirplant
miRPlant: An Integrated Tool for Identification of Plant miRNA
please cite: An J, Lai J, Sajjanhar A, Lehman ML, Nelson CC: miRPlant: an integrated tool for identification of plant miRNA from RNA sequencing data. BMC bioinformatics 2014, 15(1):275. We will create index for you if you tell us your interested plants (j.an@qut.edu.au). -
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libosmscout
Library for OpenStreetMap offline rendering and routing
libosmscout offers applications simple, high-level interfaces to offline rendering and routing functionalities based on OpenStreetMap data. It does so by preprocessing *.osm data files and generating binary data and index files for fast access. -
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SVEditor is an Eclipse-based IDE (Integrated Development Environment) for SystemVerilog and Verilog files. It features syntax coloring, content assist, source indent and auto-indent, and structure display.
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23
x-ballistics
a browser based ballistics calculator for arrows and bullets
Browser based ballistics calculator for arrows and bullets: http://www.x-ballistics.eu/app/web/ballistics/index -
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Kinetic Model Builder
GUI for building, simulating and optimizing kinetic models.
...A series of video tutorials are available at https://www.youtube.com/watch?v=7I2XPkdOvCg&list=PL-J_lULjiFsCPL2pkz8_tFe_aJ4Fc8a8k&index=1. -
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ImagingAnalysis
Direct tissue-level image quantification package for Mathematica
ImagingAnalysis is a Mathematica package that performs grid-based analysis of time-lapse imaging data saved in a sequence of TIFF files. This package requires Mathematica 7.0. Revised on 14 May 2017: Bugs are fixed and incompatibility issues are resolved. The current version runs on Mathematica 11.
