Search Results for "annotation" - Page 2
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Showing 70 open source projects for "annotation"
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Knowtator is a general-purpose text annotation tool that is integrated with the Protégé knowledge representation system. Knowtator facilitates the manual creation of training and evaluation corpora for a variety of biomedical language processing tasks.
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Anteater
Annotation Tool to Extract Endangered Animals from Text Resources
The goal of this project is the extraction the information listed below from texts downloaded from the Federal Register (https://www.federalregister.gov). The texts are mainly applications for permits, notices about given permits, etc. This software tool is developed by the Max Planck Institute for the History of Science (http://www.mpiwg-berlin.mpg.de) in collaboration with Dirk Wintergrün and Etienne Benson. -
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Java & MPEG-7 based tools for annotation and retrieval of digital photos and images (Caliph & Emir). LIRE has moved to https://github.com/dermotte/lire. Caliph & Emir have moved to https://github.com/dermotte/CaliphEmir.
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Timina is a Java web-based application for automation of all steps of a genome sequencing project: submission, assembly and annotation of sequences.
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JGBA
This project is a genome browser and annotation tool in java.
This project is a genome browser and annotation tool in java. -
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The creation of quantitative SBML models is a time-intensive manual process. Saint, an automated SBML annotation integration tool, aids the modeller and reduces development time by providing information about a model in an easy-to-use interface.
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The Celera Genome Browser, developed at Celera Genomics as part of Celera's sequencing and annotation of the human genome, and released as open source in 2006.
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A bioinformatics tool for the annotation and tag-counting of next-gen Illumina Solexa datasets. TASE works with CASAVA 1.0 builds, providing annotation, tag counts and visualization in a rapid manner.
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Enrich and query corpora in the TEI-XML vocabulary. CorpusReader manage very large corpora and corpora containing milestone annotation. It provides tools for enriching corpora with output of linguistic parsers, and for extracting quantitative information
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This program serves to provide any useful information regarding a set of loci on the genome. For every genomic position provided, the Annotater will return any "known" information regarding that position.
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Ontea - Pattern based Semantic Annotation Platform. Ontea search or create semantic meta data from text or documents using pattern based approaches. Implementation currently includes regular expressions (regex) patterns
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CNV Workshop is a web-enabled platform for analyzing genome variation such as copy number variation (CNV). Learn about CNV Workshop in our associated BMC Bioinformatics manuscript: http://www.biomedcentral.com/1471-2105/11/74
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Annotate data sets that are stored in a Tranche repository. Administrators can maintain multiple versions of annotation standards - structured requested information. Supports controlled vocabularies.
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This project extends the ASV Toolbox from the Wortschatz-project at the University of Leipzig. It annotates terms extracted by the "TE" (Terminolgy Extraction) and "Namerec" modules with semantic resources.
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A system based on the multiagent approach, to help the biologists with the manual annotation task on genome sequencing projects
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ArrayPlex integrates various forms of microarray data from diverse annotation and primary data sources. It provides a programmatic framework (API set) for collaborative development and deploys as easy to maintain client-server architecture.
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Sanchay is a collection of tools and APIs for language researchers. It has some implementations of NLP algorithms, some flexible APIs, several user friendly annotation interfaces and Sanchay Query Language for language resources.
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PhenoFam is a web-based application that performs gene set enrichment analysis (GSEA) by employing structural and functional information on families of protein domains as annotation terms.
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AnnaF is an automatic gene annotation framework, that is used to do some automatic annotation for C. higginsianum. It was also tested on F. graminearum and should work well for fungi in general. AnnaF was build upon the pipeline framework Anna.
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ARTADE (ARabidopsis Tiling-Array-based Detection of Exons) is a standard tool for the automatic annotation of genome-wide tiling-array data in Arabidopsis. ARTADE is a program originally written by Dr. Tetsuro Toyoda, RIKEN, Japan.
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The OpenNLP Interlinear Glossed Text (IGT) Editor software supports transcriptions and interlinear glosses for language documentation with semi-automated annotation.
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AKtive Media is an ontology based cross-media annotation (Images and Text) system. Our goal is to automate the process of annoation by suggesting knowledge to the user in an interactive way while the user is annotating and hence minimizing user effort.
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DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV
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This project provides bookmarklet-based web page overlays based on recognized terms from vocabulary servers. These overlays can be used to assist users with unfamiliar terminology or can be used for annotation of web-based data and literature.
