Search Results for "sqlite database browser"
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Showing 22 open source projects for "sqlite database browser"
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ECOLOG
A database management system for ecological field surveys
ECOLOG is a specimen-based, cross-platform relational database management system, aimed at the storage, retrieval and preliminary analysis of data on sites, species, and specimens gathered in ecological field surveys and biodiversity inventories. The main goal of ECOLOG is to make the data gathered in ecological field surveys readily accessible, providing lists of species collected in the study area and informations on habitat preferences, abundance or rarity of a given species, biometrics,... -
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QMinim
A web-based minimisation service
Based on MinimPy (http://sourceforge.net/projects/minimpy/), QMinim is a web-based minimization application, for allocation of subject to different arms of a clinical trial. It is an alternative to randomization, with the advantage of balancing arms of trial with respect to preselected prognostic factors. All aspects of minimization procedure including treatments, factors, minimization protocole, and including a preload can be customized using QMinim. -
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Specify Software
Biodiversity Database Platform
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 web browser application, Specify 7, is available on GitHub. In 2015, 450 biological collections worldwide use Specify Software for collections data management. -
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GNomEx
A Genomic LIMS and Data Repository
...MySQL is used for the database, although any modern RDBMS can be used. -
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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
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GenomeRunner
Annotation and enrichment of Next-Gen sequencing data
Note: This version requires additional SQLite database files. Contact the developers to obtain them. Use http://www.integrativegenomics.org/ for the latest data and analyses. GenomeRunner is a tool for automating genome exploration. It performs annotation and enrichment analyses of user-provided genomic regions (SNPs, ChIP-seq binding sites etc.) against >6,000 (human genome) epigenomic features available from the UCSC genome browser. -
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Clover
a simple lab information management system (LIMS)
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... -
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Application to create 'electronic fluorescent pictographic' representations of gene expression patterns. Created at the Provart lab of the department of Cell & Systems Biology, University of Toronto.
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SVGMap
Open source web tool to help you in the data visualisation
SVGMap is an open source web tool to help you in the visualisation of experimental data associated to some graphical representation. More at : 1. Project website http://bg.upf.edu/svgmap 2. Reference : Xavier Rafael-Palou, Michael P. Schroeder, and Nuria Lopez-Bigas SVGMap: configurable image browser for experimental data Bioinformatics 2011 : btr581v1-btr581. -
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A simple tool to import the diff, gtf and tracking files from cufflinks, cuffcompare, cuffdiff into a new sqlite database for data mining.
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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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Metmask has moved to github http://github.com/hredestig/metmask Metmask is a tool written in python for managing chemical identifiers for metabolomics experiments. It can incorporate identifiers from local textfiles, several online databases, query PubChem and record all found associations in a local sqlite database.
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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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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
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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 web browser or a CML file reader.
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EdgeExpressDB (eeDB) is a federated data abstraction system designed for integrating, interpreting, and visualizing very large biology datasets. It is designed for scaling beyond Petabytes and 10^13 objects. http://fantom.gsc.riken.jp/4/edgeexpress
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Biospha is a suite of perl scripts based on bioperl toolkit intended to help researches to manage large sequence file. With BIOSPHA you can classify each sequence according to the NCBI taxonomy. You also can get all taxonomic info from a GI or Taxid.
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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.
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Dualword-PMC
PMC browser
PubMed Central browser. Source code: http://github.com/dualword/dualword-pmc/ -
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soaPDB is a clean way to Search, Organize, and get e-mail Alerts for saved PDB (Protein Data Bank) queries
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LaboLIM
LIMS System written in PHP
LaboLIM is a laboratory information system aimed at microbiology laboratories. It is licensed under the GPL V3.0. It is written in PHP and currently uses SQLite 2.1, but could be converted to MySQL. It was partially developed with a working micro lab. Looking for some people to chip in and make it a nice project. -
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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.
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