Search Results for "command line tools" - Page 13
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Showing 2955 open source projects for "command line tools"
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HSRA
Hadoop spliced read aligner for RNA-seq data
HSRA is a MapReduce-based parallel tool for mapping reads from RNA sequencing (RNA-seq) experiments. RNA-seq analyses typically begin by mapping reads to a reference genome in order to determine the location from which the reads were originated, which is a very time-consuming step. This tool allows bioinformatics researchers to efficiently distribute their mapping tasks over the nodes of a cluster by combining a fast multithreaded spliced aligner (HISAT2) with Apache Hadoop, which is a... -
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CobolToCsv
Convert Cobol Data Files to/From Csv
This project will convert Cobol Data Files to/From Csv files using a Cobol Copybook. -
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JayMontana36 Pre-Built Minecraft Servers
Free Minecraft Servers tweaked for a lag-free experience!
Free Minecraft Servers that come with a few of the most popular used plugins pre-installed by default, all preconfigured for a lag-free experience! - Optimized for low-end systems (beast-like on medium to high end systems). - Low RAM usage/requirements/consumption. - CrossCompatible between many different versions of Minecraft. - One Server Supports all 1.4.x, 1.5.x, 1.6.x, 1.7.x, 1.8.x, 1.9.x, 1.10.x, 1.11.x, 1.12, 1.12.2 clients all at the same time. - Fully Supports Linux,... -
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UCDetector
Eclipse Plugin to find unused Java code
UCDetector (Unnecessary Code Detector) is a Open Source Eclipse Plugin Tool. UCDetector finds unnecessary (dead) public Java code. It suggests to make code final, protected or private. -
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X-RIME is a open source project devoted to provide Hadoop based solution for large scale social network analysis.
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ABSYNTH
ABSYNTH a generator of microprogram control units in HDL
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MorganaXProc (Implements XProc 1.0)
A Java implementation of XProc: An XML Pipeline Language
This project is now abandoned in favour of MorganaXProc-III which implements XProc 3.0: https://sourceforge.net/projects/morganaxproc-iiise/ MorganaXProc is a full implementation of XProc: An XML Pipeline Language (W3C Recommendation 11 May 2010) written in Java, supporting all required and optional steps, the steps proposed on EXProc.org and also the document templating steps "p:in-scope-names" and "p:template". XPath 2.0 or XPath 3.0 is used as expression language. XSLT and XQuery... -
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The Enhydra Shark project delivers a workflow server with a difference. It is an extendable and embeddable Java Open Source workflow engine framework including a standard implementation completely based on WfMC specifications.
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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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Mavscript
Calculations in a text document
Mavscript allows the user to do calculations in a text document. Plain text, LaTeX and OpenOffice Writer files (.odt) are supported. The calculation is done by the algebra system Yacas (default), Jasymca or by the Java interpreter BeanShell. -
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OYSTER Entity Resolution
OYSTER is an Entity Resolution engine
Entity Resolution is the process by which a dataset is processed and records are identified that represent the same real-world entity. OYSTER (Open sYSTem Entity Resolution) is an entity resolution system that supports probabilistic direct matching, transitive linking, and asserted linking. To facilitate prospecting for match candidates (blocking), the system builds and maintains an in-memory index of attribute values to identities. Because OYSTER has an identity management system, it... -
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Command-line/Ant-task/embeddable text file preprocessor. Macros, flow control, expressions. Recursive directory processing. Extensible in Java to display data from any data sources (as database). Can generate complete homepages (tree of HTML-s, images, etc.)
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Magisk Manager
Companion Android application for Magisk
Magisk Manager is the companion Android app historically used to manage the Magisk root solution—installing updates, toggling modules, configuring DenyList/Hide-like behavior, and passing device integrity checks where possible. It centralizes operations that would otherwise require flashing or command-line work, making root management accessible to power users and developers. The app surfaces module repositories, logs, and safety features, giving you insight into what’s modified and how it affects system behavior. Over time, its role evolved alongside Android’s changing security model, but the core idea remains: provide a clean UI for patching, updating, and managing a systemless root environment. ... -
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GitGet
Ever wanted to download only a part of a Git repository.
Ever wanted to download only a part of a Git repository. Just paste the URL of the repo you want to download and sit back and enjoy. This simple java application makes use of Web Scraping and downloads only those files you need, thus helping you save your precious bandwidth and space. -
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Summa
Lucene/Solr based search engine and workflow system
Important: This project has been moved to https://github.com/statsbiblioteket/summa/ Lucens (and Solr) based search engine with very flexible setup and workflow system. It supports incremental updates, hierarchical faceting and index lookup with low memory overhead. Note: Although Summa is open source, the focus is on features used at Statsbiblioteket. No explicit resources has been allocated for support of external users. -
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jMIPS
MIPS processor in Java
A MIPS processor modeled in Java for educational purposes and aimed at undergraduate Computer Architecture courses. It presently runs MIPS 32-bit R3000 ELF executables on any platform where Java itself will run. Five successively more sophisticated models of a pipelined MIPS RISC processor are included. Though the code is deliberately kept clear and simple in order that readers are able to figure out how a real processor works through the medium of the code, it will soon be able to run a... -
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JPPF
The open source grid computing solution
JPPF makes it easy to parallelize computationally intensive tasks and execute them on a Grid. -
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DirAutoCleaner
Very simple directory cleaner
Very simple command line application that keeps a directory clean by copying the directory files to subdirectories by date and removes the oldest ones according to the maximum number of days to keep old data. The idea is to call this program once a day for directories like 'Downloads', where it's handy to use always the same directory path for the browser downloads. -
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JSentiWordNet
A wrapper for the famous SentiWordNet, a resource for opinion mining
This project aims to provide a wrapper around the SentiWrodnet, a lexical resource for opinion mining. As defined by the authors : SentiWordNet assigns to each synset of WordNet three sentiment scores: positivity, negativity, objectivity. You can find additional information about the creation of SentiWordnet here : http://nmis.isti.cnr.it/sebastiani/Publications/LREC06.pdf sentiWordnet (avilable here : https://drive.google.com/open?id=0B0ChLbwT19XcOVZFdm5wNXA5ODg) is a text file with a... -
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jMIR
Music research software
jMIR is an open-source software suite implemented in Java for use in music information retrieval (MIR) research. It can be used to study music in the form of audio recordings, symbolic encodings and lyrical transcriptions, and can also mine cultural information from the Internet. It also includes tools for managing and profiling large music collections and for checking audio for production errors. jMIR includes software for extracting features, applying machine learning algorithms, applying... -
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PPICompare
detection of rewiring events in protein interaction networks
PPICompare detects statistically significant rewiring events in protein-protein interaction networks - even if they are caused by alternative splicing - and reports plenty of information to that. The input data needs to be constructed with PPIXpress (see https://sourceforge.net/projects/ppixpress/). The original publication can be found on https://bmcsystbiol.biomedcentral.com/articles/10.1186/s12918-017-0400-x. -
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Java G-Code Utils
Utilities for CNC (G-Code) using Java
Utilities for CNC (G-Code) using Java -
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As of 2018-06-28, this project has moved to https://github.com/AdamaJava. This copy of the code will remain but all new code updates and releases will be from the new site. Java code developed by the Australian ICGC team for operating on next-generation sequencing data. This code is currently being maintained and expanded by the QIMR Berghofer Genome Informatics team (http://www.qimrberghofer.edu.au/lab/genome-informatics/) More details and documentation can be found on the...
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jdbsee
A command line tool for database operations over JDBC
Jdbsee CLI supports running SQL queries from command line in batch or interactive mode. Database connection settings and related credentials can be persisted for later reuse. The JDBC drivers can be automatically downloaded from maven central repo or loaded from local jars. For more info see https://github.com/davidecavestro/jdbsee/blob/master/docs/index.adoc.
