Open Source Ruby Bio-Informatics Software
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Ruby Bio-Informatics Software
View 59 business solutionsBrowse free open source Ruby Bio-Informatics Software and projects below. Use the toggles on the left to filter open source Ruby Bio-Informatics Software by OS, license, language, programming language, and project status.
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Picsart Enterprise Background Removal API for Stunning eCommerce VisualsWith our Remove Background API tool, you can access the transformative capabilities of automation , which will allow you to turn any photo asset into compelling product imagery. With elevated visuals quality on your digital platforms, you can captivate your audience, and therefore achieve higher engagement and sales.
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Build apps or websites quickly on a fully managed platformRun frontend and backend services, batch jobs, host LLMs, and queue processing workloads without the need to manage infrastructure.
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Systems Biology Markup Language (SBML)
A file format for exchanging computational models in systems biology
The Systems Biology Markup Language (SBML) is an XML-based description language for representing computational models in systems biology. Visit the project web site to learn more. -
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miRprimer
Automatic design of primers for miR-specific RT-qPCR
miRprimer designs primers for PCR amplification of microRNAs as described (Busk (2014). A tool for design of primers for microRNA-specific quantitative RT-qPCR. BMC Bioinformatics. 15, 29) for use with the method miR-specific RT-qPCR (Cirera, S., and Busk, P.K. (2014). Quantification of miRNAs by a simple and specific qPCR method. Methods in Molecular Biology. 1182, 73-81.). The program was written in Ruby and is available as source code for developers and as an .exe file for easy use. -
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sciNote
Open source electronic lab notebook (ELN) for scientists
sciNote is an open source electronic lab notebook (ELN) that helps you manage your laboratory work and stores all your experimental data in one place. sciNote is specifically designed for life science students, researchers, lab technicians and group leaders. -
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ClearCanvas
Open source DICOM and RIS/PACS informatics platform
Open source code base for enabling software innovation in imaging. The extensible and robust platform includes viewing, archiving, management, workflow and distribution of images as well as an open architecture for core competency tool development. -
Test your software product anywhere in the worldGlobal App Testing is a managed pool of freelancers used by Google, Meta, Microsoft, and other world-beating software companies.
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Object oriented reusable software classes designed to be used to construct larger software projects developed in multiple software languages.
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BioC
We describe a simple XML format to share text documents and annotation
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 interested in reuse, and we focus on common NLP tasks that are broadly useful for textmining. -
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DAMIAN
Identification of pathogenic microorganisms in diagnostic samples
DAMIAN provides capabilities to detect known and novel pathogens in RNA and DNA samples of various sources. It integrates all required processing steps, ranging from the quality control of sequencing reads to the generation of comprehensive reports. The method works for any host organism. -
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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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Tab2MAGE uses a flexible spreadsheet format for MIAME annotation of microarray experiments. Tab2MAGE spreadsheets may be submitted directly to ArrayExpress, or used to generate MAGE-ML for data exchange.
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Sales CRM and Pipeline Management Software | PipedrivePipedrive’s simple interface empowers salespeople to streamline workflows and unite sales tasks in one workspace. Unlock instant sales insights with Pipedrive’s visual sales pipeline and fine-tune your strategy with robust reporting features and a personalized AI Sales Assistant.
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Atlas is a suite of variant analysis tools specializing in the separation of true SNPs and insertions and deletions (indels) from sequencing and mapping errors in Whole Exome Capture Sequecing (WECS) data.
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CompLearn is a general-purpose compression-based machine learning system that uses data compression to learn or data mine patterns in arbitrary data.
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EPTable is a simple web-based tool to analyze microarray gene expression profiles with additional gene profiles.
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A database schema and web application to archive, search, share, and download data of maximum body sizes of different taxonomic groups during the history of life on earth.
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Network Visualization is a mature part of computer science that is enjoying a good deal of growth, partially fueled by Bioinformatics. Network is a synonym for Graph, and both refer to a collection of nodes and edges.
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Simulator of virtual animals made up of biological neural networks for research in the Computational Neuroscience field.
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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.
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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 SPELL gene expression explorer searches multiple datasets for related gene expression patterns. Hibbs MA, et al. Exploring the functional landscape of gene expression: Directed search of large microarray compendia. Bioinformatics, 2007.
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The TIMTAM (Target Information Management Tracking And More) system implements a secure knowledgebase supporting the management, tracking, and analysis of experimental data associated with structural biology projects.
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A client side browser implementation of Tom Ray's Tierra Artificial Life simulator (http://en.wikipedia.org/wiki/Tierra_(computer_simulation)).
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The program fuses 2 sets of molecules. It tries different relative positions of molecules before binding them, so that there is no or minimal intersection in the resulting molecule. The atom to be fused in a molecule is labeled with an R symbol.
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my_kegg
Database built using kegg allowing to cross data
Database built using kegg allowing to cross data from different biological analysis technics. -
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rnasimulase
Simulation of allele-specific RNA-seq data
Simulation of allele-specific RNA-seq data -
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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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