Search Results for "pipeline" - Page 2
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Showing 83 open source projects for "pipeline"
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apache spark data pipeline osDQ
osDQ dedicated to create apache spark based data pipeline using JSON
This is an offshoot project of open source data quality (osDQ) project https://sourceforge.net/projects/dataquality/ This sub project will create apache spark based data pipeline where JSON based metadata (file) will be used to run data processing , data pipeline , data quality and data preparation and data modeling features for big data. This uses java API of apache spark. It can run in local mode also. Get json example at https://github.com/arrahtech/osdq-spark How to run Unzip... -
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CloverDX
Design, automate, operate and publish data pipelines at scale
Please, visit www.cloverdx.com for latest product versions. Data integration platform; can be used to transform/map/manipulate data in batch and near-realtime modes. Suppors various input/output formats (CSV,FIXLEN,Excel,XML,JSON,Parquet, Avro,EDI/X12,HL7,COBOL,LOTUS, etc.). Connects to RDBMS/JMS/Kafka/SOAP/Rest/LDAP/S3/HTTP/FTP/ZIP/TAR. CloverDX offers 100+ specialized components which can be further extended by creation of "macros" - subgraphs - and libraries, shareable with 3rd... -
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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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Taxoblast
Taxoblast is a pipeline to identify contamination in genomic sequence
Raw genomic sequences are frequently contaminated with sequences of other organism. Their identification is essential for the interpretation of genomic data. In this context it is essential to distinguish between horizontal gene transfers and contamination. The genomic context of sequences can help distinguish the two scenarios. Taxoblast splits genomic scaffolds into sub-sequences of defined length and for each of them determines the closest related taxon. It then summarizes this... -
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.... The modules are written in JAVA and ‘wrapped’ for execution under the General Architecture for Text Engineering (GATE) framework. The project also includes CYMRIE an adapted version for Welsh of the GATE - ANNIE Named Entity Recognition (NER) application for a range of entities such as Persons, Organisations, Locations, and date and time expressions. Version 2.x The CYMRIE pipeline is accessible via a API, standalone GUI and CLI. The CymrIE pipeline has also been adapted for Twitter.
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Android Game Engine
Multi-threaded game engine for Android
.... Game Objects (GOs) opt-in to services by implementing the "marker" interface for each one it wants. GOs enter the system via Install Pipeline, an asynchronous "standard" implementation that keys on the marker interfaces and performs the "protocol" for that marker. There are also Event and Uninstall pipelines. Reference by name is encouraged. A trip through the pipeline includes a Bind Name List; allows GO to connect to interfaces in other GOs on the other End. -
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valve-pipeline
Continuous Delivery pipeline visualisations
Continuous Delivery pipeline visualisations -
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conduit-pipeline
Continuous Delivery pipeline tasks
Continuous Delivery pipeline tasks -
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A tool for extracting and preprocessing spectral count data for label-free quantitative proteomic analysis. This program is designed to be used with the Trans-Proteomic Pipeline (TPP).
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IAP.G2P
IAP - the Integrated Analysis Pipeline
The Integrated Analysis Platform (IAP) has been designed and developed to support the analysis of large-scale image data sets of different camera systems. It aims in bridging different data domains and in integrating different approaches to data analysis and post-processing. -
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ArtificialFastqGenerator
Ouputs artificial FASTQ files derived from a reference genome.
... Generation Sequencing (NGS) analysis pipeline which aligns reads to the reference genome and then calls the variants. -
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csmake
Cloud Service Make.
To make the native application to support cloud service, csmake will genarate a client stub and the service application, it's similar with the webservice, COBAR, omniORB, SOAP, gsoap etc. -
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memesa-tools
A collection of tools used in the enumeration of solution spaces
This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function. -
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iMir
Integrated pipeline for HT miRNA-Seq data analysis
Processing of smallRNA-Seq data to gather biologically relevant information requires application of multiple statistical and bioinformatics tools from different sources, each focusing on a specific step of the analysis pipeline. The analytical workflow can be challenging for the continuous interventions by the operator, a critical factor when large numbers of datasets need to be analyzed at once. To allow a flexible and comprehensive analysis of smallRNA-Seq data we designed a novel modular... -
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openSEQ
NGS compute distro proloaded with pipeline analysis software
Forked Ubuntu 14.04 minimal install with XOrg and FluxBox desktop environment for web-based pipeline construction and job submission. HOWTO: 1) Set VM network settings to a bridged adapter type. 2) Load VM to client 3) From host: $ ssh -X ubuntu@<foobar> 'firefox && butterfly.server.py --unsecure' --- passwd = 616287xx 5) or ssh into host with X forwarding, and type runme This will launch an X-session of Firefox on the client, which will then be forwarded to the host... -
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IQuant
A pipeline for quantitative proteomics based upon isobaric tags
IQuant is an automated pipeline for quantitative proteomics based upon isobaric tags. It integrates post-processing tool of protein identification and advanced statistical algorithms to process the MS/MS signals generated from the peptides labeled by isobaric tags for quantification. IQuant can run from a graphical user interface (GUI) as well as a command-line interface and work with both Windows and Linux system. This website contains the IQuant software, an example data labeled by iTRAQ... -
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OPTIMA cidoc-crm Semantic Annotation
Semantic annotation of archaeology reports with respect to CIDOC-CRM
... Reference Model (CRM) and its archaeological extension, CRM-EH. OPTIMA is also targeted at the detection and recognition of contextual relations between CRM entities. Such relations are modeled with respect to the CRM-EH archaeology extension. The pipeline targets the CIDOC-CRM entities; E19.Physical_Object, E53.Place, E49.Time_Appellation and E57.Material and the CRM-EH entities; EHE1001.Context_Event, EHE1002.Production_Event, EHE1004.Deposition_Event and P45.consists_of material property -
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A next gen sequencing analysis pipeline designed to run on hadoop/hdfs written in java and PIG. For more info, contact Zack Ramjan at USC
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openDLX
A DLX/MIPS processor simulator
openDLX is a DLX/MIPS ISA compatible pipeline simulator. (Visit https://github.com/smetzlaff/openDLX for the latest development version or if You want to contribute.) -
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xmlfind
A command line tool to extract data from xml files
XmlFind is a small tool to extract data from an xml file in a format adapted to a classical Unix Shell pipeline. Think of it as a kind of find command that act on the content of a (or a set of) xml files. -
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Rich user interface for the DAISY Pipeline. The DAISY Pipeline is a cross-platform, open source framework for DTB-related document transformations.
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SeqWare has moved to GitHub, see https://github.com/SeqWare SeqWare is a project to create a tool set to work with next generation genome sequencers (SOLiD & Illumina). It includes a LIMS, Pipeline, and Query Engine. Check out the wiki link below to see documentation. You can get the source from the Develop link.
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JActor
High Performance, Lock Free Java Actors
JActor is a high-performance actor framework designed to make vertical scalability easy. JActor achieves its speed, in part, by almost always executing synchronously--though it is easy enough to force asynchronous processing when needed. JActor is divided into several GitHub projects: JActor - https://github.com/laforge49/JActor JID - https://github.com/laforge49/JID JFile - https://github.com/laforge49/JFile JANetty - https://github.com/kumarshantanu/JANetty -
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BatchPD
BatchPD: Batch automation of a primer design pipeline for human genes
BatchPD is a primer design program developed to address the needs of clinical diagnostics laboratories to design primer oligos for PCR amplification against human gene exons, taking into account of SNPs where possible. Research paper publication: http://www.bioinformation.net/008/97320630008365.htm BatchPD checks specificity via in-silico PCR, provide gene/exon specific relevant information summarised in an end spread-sheet; Primer design, PCR checks and other relevant information are... -
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Rebeca is a powerful event-based middleware for information-driven applications based on publish/subscribe. With its advanced plugin pipeline architecture it provides high flexibility.