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OTHER SOFTWARE


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Protégé logo

Protégé is a free, open-source platform that provides a growing user community with a suite of tools to construct domain models and knowledge-based applications with ontologies. It is a tool that acts like the “word processor” of an ontology and uses a language like OWL as a convenient standard. At its core, Protégé implements a rich set of knowledge-modeling structures and actions that support the creation, visualization, and manipulation of ontologies in various representation formats.

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BioQuery logo

BioQuery is a multi platform bioinformatics software program that provides a single, powerful user interface for building search strategies for numerous different biomedical databases.

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MAGIC Tool logo
Category: Other software

MAGIC Tool is an integrated microarray data analysis free software with open source.

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Cyflogic for flow cytometry logo
Category: Other software

Cyflogic is a flow cytometry data analysis tool for Microsoft Windows enviroment. It has all "regular" analysis capabilities, such as dot plot, histogram and statistics.

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MetaXCMS (Scripps Metabolomics) logo
Category: Other software
Subcategories: Metabolomics

MetaXCMS enables second-order meta-analysis of an unlimited number of sample classes to assist in distinguishing metabolites that are causally associated with the phenotype of interest from those that are unrelated but altered in downstream pathways as an effect.

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GENE-E HeatMaps logo
Category: Other software

GENE-E is a Java desktop application developed to allow the rapid visual exploration of data sets derived from RNAi and chemical screens. GENE-E’s user interface is based on an interactive heat map that allows users to easily highlight and drill down to regions of interes

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MyBioSoftware logo
Category: Other software

MyBioSoftware provides a list with links of several software tools used in Bioinformatics.

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openBIS logo
Category: Other software
openBIS allows: Workflow

openBIS is an open, distributed system for managing biological information for Windows And Linux. The main goal is to support biological research data workflows from the source (i.e. the measurement instruments) to facilitate the process of answering biological questions by means of cross-domain queries against raw data, processed data, knowledge resources and its corresponding metadata. The openBIS software framework can be easily extended and has been customized for High Content Screening, Pro

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MassBank logo

MassBank is the first public repository of mass spectral data for sharing them among scientific research community. MassBank data are useful for the chemical identification and structure elucidation of chemical comounds detected by mass spectrometry. MassBank system is originally designed for public sharing of reference mass spectra for metabolite identification. It is also useful for their in-house or local sharing. Recently it finds another application; sharing mass spectra of unknown metabo

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XCMS (Scripps Metabolomics)) logo
Category: Other software
Subcategories: Metabolomics

The XCMS software reads and processes LC/MS data stored in netcdf , mzXML, mzData and mzML files. It provides methods for feature detection, non-linear retention time alignment, visualization, relative quantization and statistics. XCMS is capable of simultaneously preprocessing, analyzing, and visualizing the raw data from hundreds of samples.

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Knime logo
Category: Other software
Knime allows: Workflow

KNIME, the Konstanz Information Miner is a user-friendly and comprehensive opensource data analytics and integration platform for Windows, Linux and Mac. It seamlessly supports the entire data process workflow covering data loading, integration, processing, analysis,visualization and reporting. KNIME enables the user to visually create data flows(often referred to as pipelines),selectively execute some or all analysis steps, and later investigate the results through interactive views on data and

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LINA -Laboratory Inventory Network Application logo

LINA is a free software system for Windows that was developed to assist research laboratories in keeping track of their collections of biologically relevant materials, including oligonucleotides, bacterial (plasmid) strains, yeast strains and cell lines. Samples are then organized in freezer boxes according to those numbers and users can search the database by keyword, source and function.Basically, the LINA system was developed to allow academic laboratories to efficiently manage their inventor

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ISA metadata tracking tools logo
Category: Other software

The open source ISA metadata tracking tools facilitates standards compliant collection, curation, local management and reuse of datasets in an increasingly diverse set of life science domains. Built around the ‘Investigation’ (the project context), ‘Study’ (a unit of research) and ‘Assay’ (analytical measurement) metadata categories, the tools are designed to manage studies employing one or a combination of technologies.

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Taverna Workflows logo
Category: Other software
Taverna Workflows allows: Workflow

Taverna is a multiplatform open source Management System written in Java for designing and executing workflows. A suite of tools used to design and execute scientific workflows and aid in silico experimentation.

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Mendeley Desktop logo
Category: Other software

Mendeley is a free desktop and web tool for research and literature management. It acts as reference manager and academic social network for for managing and sharing research papers,discovering research data and collaborating on line (Singh, J Pharmacol Pharmacotherap 1:62, 2010).

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