Search Results for "annotation"

...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. Since version 4, we provide functionalities for management of genomes and transcriptomes, including genome alignment and annotation of transposable elements. A complete list of functionalities is available in our wiki (https://sourceforge.net/p/ngsep/wiki/Home/). ...

The Phenoscape project attempts to formalize the description of evolutionary characters to make them interoperable and computable with the body of phenotype annotation being generated by model organism databases, and other biomedical research.

Network software for annotation and quality control of distributed data. Supported by NSF: DBI 0646266 and NSF: DBI 0960535. http://wiki.filteredpush.org

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...

The BioNLP UIMA Component Repository provides UIMA wrappers for novel and well-known 3rd-party NLP tools used in biomedical text prosessing, such as tokenizers, parsers, named entity taggers, and tools for evaluation.

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.

Task of the project is a semantic annotation of Czech texts by using NLP tools.

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.

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

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

Annotate data sets that are stored in a Tranche repository. Administrators can maintain multiple versions of annotation standards - structured requested information. Supports controlled vocabularies.

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.

LT4eL (Language Technology for e-Learning) develops a framework of multilingual language technology tools and semantic web techniques for improving the retrieval and the metadata annotation of learning material.

The Text Annotation Environment (tae) can be used to annotate natural language text manually or automatically (UIMA Annotator) with meta information (tokens, part-of-speech, named entities, ...). Tae is based on Eclipse and IBM's UIMA.

AmiGram is the AMI Graphical Representation and Annotation Module. It is a general-purpose tool for multimodal corpus annotation and allows the time line based annoation of NXT corpora in a layer based environment.

Thea, Tools for High-throughput Experiment Analysis, is an integrated information processing system dedicated to the annotation of data issued from classification systems with biological information coming from a knowledge base.

The Annotation Graph Schema API aims to aid developers in the creation and querying of Annotation bases where the use of XML-based tools is needed. It is easily integratable with any persistent representation and has a flexible in-memory model.

WordFreak is a java-based linguistic annotation tool designed to support human, and automatic annotation of linguistic data as well as employ active-learning for human correction of automatically annotated data.

A tool kit for multiplexing annotations and management of features for textual annotation.

SAAT Semi-Automated Annotation Tools The Medical University Graz, in cooperation with the Fraunhofer Institute for Biomedical Engineering IBMT is developing the SAAT - Semi-Automated Annotation Tools in the CRIP context.

ANNALIST (Annotation, Alignment and Scoring Tool) is a scoring tool for the evaluation of the output of text-based semantic annotation systems.