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Showing 31 open source projects for "read"
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Bowtie, an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers. Please cite: Langmead B, et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
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ecang
Ethercat analyzer. Pcapng (by wireshark) to cvs files converter.
...Ecang extracts the list of the slaves managed and the PDOs exchanged in an ethercat network directly from the network configuration file (ENI file) .xml, thanks to this data it can read numerous information from the file generated by the sniffer (.pcapng) and transfers them to a comma-separated values file (.csv) already applying a first level of validation. -
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NGSEP
NGSEP (Next Generation Sequencing Experience Platform)
NGSEP is an integrated framework for analysis of short and long DNA high throughput sequencing reads. The current version provides functionalities for both de-novo and reference guided analysis of sequencing data, including genome assembly, read mapping, variants detection and genotyping and de-novo analysis of data generated from reduced representation protocols. NGSEP also provides modules for analysis of genomic variation databases (VCF files), including functional annotation, filtering, format conversion, comparison, clustering, imputation, introgression analysis and different kinds of statistics. ... -
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TXM
Unicode XML TEI text analysis platform
...rubrique61&lang=en TXM offers a comprehensive range of analysis tools (concordances, collocate search, frequency lists, etc.) based on the powerfull CQP full text search engine (http://cwb.sourceforge.net) and a range of statistical functions (factorial analysis, classification, cooccurrency analysis, etc.) based on R packages (http://www.r-project.org). Read the scientific background at the Textométrie project web site http://textometrie.ens-lyon.fr/?lang=en. Read a full description at the TEI Tools wiki http://wiki.tei-c.org/index.php/TXM. -
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ADaMSoft
Open Source and data mining software
ADaMSoft is a free and Open Source Data Mining software developed in Java. It contains data management methods and it can create ready to use reports. It can read data from several sources and it can write the results in different formats. -
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The main purpose of CombiTagger is to read files generated by individual PoS taggers and use them to develop and evaluate combined taggers according to a given combination algorithm. http://aaai.org/ocs/index.php/FLAIRS/2009/paper/download/67/296
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Chromensics - Google Chrome Forensics
A Google chrome forensics tool
The Chromensics tool is developed to read all information from chrome browser directory and present it to user, in easy readable tabular format which can be explored in descent interface without running the chrome browser. The tool will also allow you retrieve information from other chrome installation brought from different machine for analyzing. The acquired artifacts can be exported in PDF report to present it in court of law or to superiors. -
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BioC
We describe a simple XML format to share text documents and annotation
A minimalist approach to share text documents and data annotations. Allows a large number of different annotations to be represented. Project files contain: - simple code to hold/read/write data and perform sample processing. - BioC-formatted corpora - BioC tools that work with BioC corpora BioC goals - simplicity - interoperability - broad use - reuse There should be little investment required to learn to use a format or a software module to process that format. We are interested in reuse, and we focus on common NLP tasks that are broadly useful for textmining. -
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xlsLib
C++/C library to construct Excel .xls files in code.
...Changes: - library specific strings now in their own namespace - iOS Objective-C library - most project files updated (MSVS etc) - C bridge now supports formulas Note: there is a related SF project, libxls, to read Excel files. -
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SnowMicroPyn
Python based reader for SnowMicroPen® .pnt measurements
...The reader is Python based and published as source code as well as compiled executable for Windows, Linux and Mac. The software is preliminary, thus please report bugs. For further information, please read the Readme.txt in the download section. The SnowMicroPen® (SMP) is developed by the WSL Institute for Snow and Avalanche Research, Davos. The SMP is the first high-resolution snow penetrometer. It is capable of measuring the bonding force between snow grains, with both high spatial resolution and high speed. The SMP can be used in different application areas as snow profiling (avalanche forecasting, snow stratigraphy, remote sensing ground truth), ski track characterization (ski racing) or snow runway characterization (stability testing). -
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GISBox by Citiviz
Ready-to-use appliance for GIS, Data Mining and Analysis, Modelling...
...The pre-configured and tested GISBox allows you to try and use in few minutes a variety of software used by data scientists, engineers, physicists, mathematicians, geomatics engineers, and geographers from around the globe, without installing anything more than once the Oracle VirtualBox™ software (https://www.virtualbox.org/) on your Linux, Windows or Mac computer. The GISBox is free and open, allowing it to be freely distributed, duplicated and passed around, even with your own datasets and in-house applications. If you read this and are related to the Ecole polytechnique de Lausanne - EPFL (http://www.epfl.ch) in Switzerland, please use this link for downloading or support information: http://gisbox.epfl.ch. Happy (geo)Data Hacking! Brought to you by Citiviz' Builders -
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...We now output JSON objects and I'm working on HBase integration. By outputting to JSON it also leaves open the possibility for on the fly in memory correlation between events. Read the included README before starting, it has a quick start guide and info on the constructors.
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noise-free-cnv
program for analyzing and manipulating DNA microarray data
...The visualization and the suppression of genomic waves, the comparison of two datasets by subtraction and the simultaneous inspection of LRR and BAF values are amongst the most frequent applications of this software. This program is able to read and write files suitable for PennCNV or raw files containing measured values of any kind. -
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Sharp Statistics
A simple program for comparing data sets with simple algorithms.
Replace the data in the data.db file with your own data using an sqlite3 manager. Tables are read as data set names, and the values are read as the data points of the data sets. Load the application, choose an algorithm, and the program will find the pairs that best match each other. -
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OMR Reader
OMR Sheets Data Retrieval Software
OMR Reader is an application to read data from scanned images of OMR sheets. You can first create a template for a particular form and save it as a .omr file. To create a template, use a form with all filled marks. The program will automatically detect the marks. Now choose the marks for a group, and name the group. Do this for all the option groups on the form. Now save the info of these groups in a .omr file. -
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NeatTools is an object oriented visual programming application which allows users to create data flow networks, read sensors, and display and log data. See http://neattools.org and http://www.neattools.org/wiki for more information.
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Open Source Android Forensics Toolkit
OSAF-TK your one stop shop for Android malware analysis and forensics.
Welcome to OSAF! The OSAF-Toolkit was developed, as a senior design project, by a group of IT students from the University of Cincinnati, wanting to pioneer and pave the way for standardization of Android malware analysis. The OSAF-Toolkit is built from Ubuntu 11.10 and pre-compiled with all of the tools needed to rip apart applications for code review and malware analysis. Our primary goal with the toolkit is to be able to make application analysis as easy as possible. We also wanted to... -
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GUI utility in pure Java for viewing and editing XML content; example of application built with Superficial http://superficial.sourceforge.net
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Rdd is a forensic copy program developed at and used by the Netherlands Forensic Institute (NFI). Unlike most copy programs, rdd is robust with respect to read errors, which is an important property in a forensic operating environment.
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A generic geospatial analysis and viewing capability using Perl scripts that provides the foundation and structure for readily creating KML data files from disparate data sources. KML files can be read and viewed by Google Earth and other tools.
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...Phenotype info for EBV-LCLs (HAPMAP CEU) for a minor histocompatibility antigen (mHag) specific T cell is input. Output is the region containing the mHag. A step-by-step read-me will be included.Email r.m.spaapen@umcutrecht.nl for help.
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These simple programs are for doing data reduction and then display of columns of tab delimited data. They are designed to be piped together so you can do multiple things at once. This means they typically read from stdin and output to stdout.
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SNNSraster is a utility for quick ANN analysis of raster GIS maps with the use of Stuttgart Neural Network Simulator trained network files. It was developed to read and write binary raster files. SNNSraster is a project of the Geography Laboratory of the University of Siena. The code was developed by Giancarlo Macchi Jánica between 2006 and 2007. SNNSraster's fundamental objective is to improve the ability to integrate the use of artificial neural networks in GIS environments.
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HourMan 2003 is a Windows hour tally program designed to work with natural language input. It will read input by line (for an arbitrary number of lines) with data arranged in various forms, organize it by subject, and return the sum by subject.
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File-Spector is a small, fast and easy to use binary file analyzer and Inspector. It allows the users to format a complete binary file structure and then use it to read any binary file that matches the specified format.
