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Specify is a biological collections and species occurrence database management platform for zoological museums, herbaria and other biodiversity specimen repositories. Specify is supported by grants from the Division of Biological Infrastructure, U.S. National Science Foundation and the State of Kansas. A webbrowser application, Specify 7, is available on GitHub. In 2015, 450 biological collections worldwide use Specify Software for collections data management. An iPad app, Specify Insight is also available.
a tool to master DNA sequences, plasmids and restriction digests
The Wiley DNA Editor is a simple tool to handle DNA sequence information up to 100 kbp using java script in your browser window. The main idea is to install nothing but start cloning. Here we handle the development and the bug reports. The Wiley DNA Editor can be used from our homepage - or the files available in the download section.
Krona allows hierarchical data to be explored with zoomable HTML5 pie charts. Krona charts can be created using an Excel template or Krona Tools, which includes support for several bioinformatics tools and raw data formats.
We've moved to https://github.com/tjod/gMol/wiki
gMol is an interactive visualization system used to display and manipulate 3-dimensional models of scientific data, such as molecular structures and surfaces. It contains both OpenGL and webbrowser widgets that enable flexible user interfaces.
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mx is a Ruby/Rails code base with broad application in evolutionary biology, it includes general functionality for matrix handling, sequence management, ontology construction, specimen handling, taxonomic catalogs, taxonomic descriptions and more
tigreBrowser is a web-based browser for ranking results from R/Bioconductor package tigre and similar tools. It allows easy viewing, sorting and filtering of visualisations of models produced by tigre.
Clover is a simple lab information management system (LIMS) designed for biology labs, especially plant biology labs. It provides an easy way to manage and handle the information of lab material, catalogs (inventories), and orders.
USE PHP 5.*!
Clover will not work on PHP 7.*!
The wiki page contains detailed help documents: https://sourceforge.net/p/cloversystem/wiki/Home/
For lab instrument scheduling, please use Cloveriver:
https://sourceforge.net/projects/cloveriver/
Please...
GPL-licensed Electronic Medical Record and Practice Management system for medical providers that runs in any webbrowser in multiple languages. It provides an XML-RPC backend and multiple import and export formats, as well as reporting and other features
VI Compute Server (VICS) is a collection of grid-enabled bioinformatics tools with HTTP (browser) and Web Services (scriptable) interfaces. JCVI VICS is licensed under the Perl Foundation Artistic License 2.0.
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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
Ruby Research Wiki (RRiki) can be used to keep notes and organize references for research. It uses a browser interface, an intuitive plain text formatting language (markdown), and facilities to cross-reference and hierarchically organize notes
OmicBrowse, developed with Flash and Java, is a highly evaluated genome browser integrating omics knowledge ranging from genomes to phenomes and is especially appropriate for positional-cloning purposes.
The Chemical Structures Project is a set of 3D structures of molecules in CML format. Each file contains also some physical properties, which can be access using a webbrowser or a CML file reader.
Stratos viewer is a web based utility to examine DICOM medical images through a webbrowser.
This project is not active anymore. If you are interested in a Dicom web viewer, have a look at our new development: MedView [ https://github.com/jap1968/medview ]
The Genomic Diversity and Phenotype Connection (GDPC) written in JAVA uses web services to make XML formatted data publicly available. The GDPC Browser (front-end GUI) can access these services, and other applications can use the API.
RmscopII is a Tcl/Tk script responsible to redirect protein structure files (PDB files) or RasMol scripts to multiple RasMol sessions. It can be used as a webbrowser helper application or as a standalone program.
A web based tool that combines automatic extraction of gene and protein entities with manual curation done by the researchers who read and write the biomedical texts. The interface is loaded in webbrowser extensions and viewed along with the abstract.
Shred is a fast and scalable faceted data browser. The application allows users to navigate the data in an intuitive way and by any path they wish to take. Immediate intuitive information regarding the data is apparent.