Search Results for "dv-work"
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Showing 25 open source projects for "dv-work"
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BioC
We describe a simple XML format to share text documents and annotation
...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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Lab Inventory
Rediscover the Simplicity www.atgclabs.com
...If you are experiencing problems using the Lab Inventory System then please report your problem to support@atgclabs.com If you want to get priority help, need to get up to speed quickly, require some training or need full production support, request customization to your unique work flows or new features, please contact sales@atgclabs.com Join us on www.linkedin.com/groups/Lab-Inventory -
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Sequencia
Protein Primary Sequnece Analysis
...This work includes all the Physiochemical Properties- related to Primary Sequence Analysis under a common platform. JAVA, BIOJAVA were used under Platform Independent architecture. The Tool includes Properties of being offline where result can be stored in Text Format, here we can paste more than one sequence and also upload FASTA file to compute Parameters. -
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Gene Studio is a free tool for modelling of DNA manipulation. It will allow to work with vectors, to design primers, to clone molecules and provide user friendly intewrface.
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IQuant
A 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-8plex for testing and a user's manual. If you have any question about IQuant, please contact me: wenbo@genomics.cn. The source code of IQuant can be found here "https://sourceforge.net/p/iquant/code/". -
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Athus
Manage, merge, filter and convert population genetics data
...Starting from well specified input formats VCF, BED and FASTA and a unique configuration file describing data (f.e. from SNP-arrays or sequencing) as well as filtering one can create standard POPGEN formats like Eigenstrat, PEDMAP (PLINK), Treemix ... In addition there are several utilities for * generating VCF from SNPArray data (NCBI - GEO, Illumina call files) * work with genetic maps ... -
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cmotif
A method for mining conditional phosphorylation motifs
Phosphorylation motifs represent position-specific amino acid patterns around the phosphorylation sites in the set of phosphopeptides. The discovery of phosphorylation motifs is a very valuable work in bioinformatics. Although several algorithms have been proposed to uncover phosphorylation motifs, the problem of efficiently discovering a set of significant motifs with sufficiently high coverage and non-redundancy still remains unsolved. In this paper, we propose an algorithm called C-Motif for a non-redundant identification of significant phosphorylation motifs. ... -
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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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Onco-STS
A web-based Laboratory Information Management System
...These meta-data of the sequencing and analysis procedures include information about the samples and projects as well as the sequencing centers, platforms, data locations, results locations, alignments, analysis specifications and further information relevant to the experiments. The sample tracking system for oncogenomic studies (Onco-STS) is designed to store these data and make them easily accessible to the researchers who work with the samples. The system is a web application, which includes a database and a front-end web page that allows the remote access, submission and updating of the sample data in the database. -
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...The first module in the project was the "ePrescribing application"; certified by RxHub and SureScripts back in 2007. New implementation needs to "re-certify" with SureScripts (which should not be much of a problem) Work on eLabs (using ELINCS, LOINC etc.) is being considered as participants join the project become available. The HL7 RIM allows for eImaging applications, eConsults applications, eReferrals applications, etc. Applications work independently, but through HIE, results come back to the provider to see it in its "CPOE Section or Module" Requires licensing of the MediSpan Drug Database for ePrescrib
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Index biological data (genbank sheets, Uniprot...) in a Solr indexer, with index shard support and provides a query interface. Project goal is to create a virtual image with indexer and web interface to query and visualize biological data.
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clinicalStudyTracker
Clinical study tracker tracks case study members through activities.
Developed at Medical Research Council UK to meet a common clinical trial need to track various types of clinical data. Users log dates of completed tasks against participant ID. Simple, useable, reduces lost data! Makes graphical progress reports. -
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This is a multi-threaded Java program that tries to maximise CPU utilization by separating and distributing the computational part of the work from the file reading and writing part by using separate threads.
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JFlux is a java library and graphical user interface to work with flow cytometry data. In particular, it is adapted to the COPAS biosorter and can analyze expression profiles.
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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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Large set of functions for biological records (ECG, EEG, phono), datastore, datamining and analysis (HRV, QT, RR, ST). The application is written in Java, so that it is assumed to work on all devices. It runs as a desktop or client-server application. It
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JGenAlg is a java toolbox for working with metaheuristic procedures (Genetic Algorithms, Island model, Particle Swarm, Ant Swarm). JGenAlg have a GUI, a Client/Server architecture, work with threads and can be use under distributed enviroments.
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Jyrax is a Java-based, embeddable DAS/2 client designed to work with the 'assay' portion of the evolving DAS/2 specification. Jyrax can query a DAS/2 server and select microarray or other experimental data for retrieval.
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GeXpert is an expert system that can be used for genetics and metabolic pathway analysis. GeXpert can help Biotechnologists do their work faster, reducing the time required for performing, analyzing and storing the results of Bioinformatics research.
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COB editor is a collaborative editor for biological ontology (e.g., Gene Ontology) building. Building on the idea of modular ontology from KR research, it supports multiple people to work on the same ontology.
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Wavelets At Work is a graphical tool (written in java) using wavelets in order to detect discontinuity of an input signal.
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GeNetDB, contraction of Genetic Network Database, is a bioinformatic platform destined to the study of genetic regulatory networks. It contains in one place the data and the way to study them, providing the user an access to all tools needed for his work
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Bioinformatics is commonly understood as work with the DNA and protein sequences. However databases and computational analysis were tried on other objects far before these sequences became widely available. This work is about analysis of spatial movement
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mobycentral
The library to work with BioMOBY Registries
The library allows to communicate with BioMOBY Registries and implements all operations such as retrieval, search, registration, deregistration of services, data types etc...
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