Search Results for "web mapping framework"
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Showing 26 open source projects for "web mapping framework"
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NGSEP
NGSEP (Next Generation Sequencing Experience Platform)
NGSEP is an integrated framework for analysis of short and long DNA high throughput sequencing reads. The current version provides functionalities for both de-novo and reference guided analysis of sequencing data, including genome assembly, read mapping, variants detection and genotyping and de-novo analysis of data generated from reduced representation protocols. -
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The Systems Biology Format Converter (SBFC) is a Java generic framework aiming to translate any systems biology model format into another. The SBFC Web Site providing detailed feature description and instructions for installing, using and developing new modules is: http://sbfc.sourceforge.net/ . Currently, SBFC allows the user to convert SBML models into the formats: BioPax, Matlab, Octave, XPP, DOT, and SBGN.
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MiModD
Mutation Identification in Model Organism Genomes using Desktop PCs
MiModD is a software package for genomic variant identification from next-generation sequencing (NGS) data with optimized usage of system resources and a user-friendly interface. For most model organism genomes it lets the user carry out a complete analysis from unaligned genomic NGS read data to an annotated list of variants on a regular Desktop PC within a few hours. Its user-interface is beginner-friendly and designed to encourage geneticists to analyze NGS data themselves without the... -
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bioweb
polyglot language framework to analyze genetic data
polyglot framework using Python/C++/JavaScript to fast develop applications to analyze biological sequences -
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WellMeth
Genome-Wide DNA Methylation Analysis with RRBS
WellMeth is a integrated framework for Reduced Representation Bisulfite-Seq analysis -
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HSRA
Hadoop spliced read aligner for RNA-seq data
HSRA is a MapReduce-based parallel tool for mapping reads from RNA sequencing (RNA-seq) experiments. RNA-seq analyses typically begin by mapping reads to a reference genome in order to determine the location from which the reads were originated, which is a very time-consuming step. This tool allows bioinformatics researchers to efficiently distribute their mapping tasks over the nodes of a cluster by combining a fast multithreaded spliced aligner (HISAT2) with Apache Hadoop, which is a distributed computing framework for scalable Big Data processing. ... -
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openModeller is a complete C++ framework for species potential distribution modelling. The project also includes a graphical user interface, a web service interface and an API for Python.
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scipion-xmipp
Image processing framework to integrate EM software packages.
Scipion is an image processing framework to obtain 3D models of macromolecular complexes using Electron Microscopy (3DEM). It integrates several software packages and presents an unified interface for both biologists and developers. Scipion allows to execute workflows combining different software tools, while taking care of formats and conversions. Additionally, all steps are tracked and can be reproduced later on. Xmipp is a well-known package in the EM image processing. It is integrated... -
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Ymap - Yeast Mapping Analysis Pipeline
Pipeline for large-scale genome changes analysis of genome datasets.
The active use repository has migrated over to: https://github.com/darrenabbey/ymap The repository here was errantly created with some large binary files included. Attempts to extract the files from the history here have failed. A copy of the history was successfully scrubbed and then hosted at github. -------- Eukaryotic pathogens have complicated and dynamic genomes. To facilitate analysis of copy number variations (CNV), single nucleotide polymorphisms (SNPs), and loss of... -
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Marta
Cancer Registry Web Application
Marta è una web application nata per aiutare i Registri Tumori. Accesso sicuro alle informazioni, tool di importazione, algoritmi di analisi e molto altro. Ma ho bisogno di una mano...da solo non ho abbastanza tempo ! Se volete aiutare, contattatemi su: - **gmail/hangout** dangeloantonio179@gmail.com - **skype** sickpuppies73 Più ne siamo e meglio è ! -
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Framework for text mining, data integration and data analysis. Keywords: ontology and graph alignment, relation mining, warehouse, semantic database integration, bioinformatics, systems biology, microarray, Java.
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Webapp
A web interface to the SnowyOwl gene prediction pipeline
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GEPETTO - Gene Prioritization in Java
GEPETTO (GEne Prioritization ExTended TOol)
GEPETTO (GEne PrioriTization ExTended TOol) is an original open-source framework, distributed under the LGPL license, for gene selection and prioritization on a desktop computer that ensures confidentiality of personal data. It takes advantage of the data integration capabilities in the SM2PH-Central Framework(KD4v,MSV3d,BIRD,..), combined with in-house developed gene prioritization methods. It currently incorporates six prioritization modules, based on gene sequence, protein-protein... -
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Anfani EHR
Easy-to use electronic medical records framework
Ànfàní EHR - an easy to use and electronic health records framework for hospitals and health centers . Th Ànfàní EHR project project was initially created for developing countries, so ease of use was a priority. The basic system which is just for medical records keeping. It offers following features: - Electronic records forms - File uploads - Image uploads - Other media uploads -(audio, video) - Internationalization - Interface translation in English, French, Spanish , Portuguese, Arabic. -
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Web-based user interface for MAQ (Mapping and Assembly with Qualities), an Illumina / Solexa Deep Sequencing Reads (fastq format) mapping software. MAQGene classifies each found mutation based on its canonically predicted effect on the coding sequence.
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A collection of tools for working with the comparative data analysis ontology including import/export facilities for common phylogenetic file formats, and also a triple-store framework.
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The HuRef Genome Browser is a Web resource for the navigation of an individual human genome, termed HuRef, published in PLoS Biology. The browser is a unified framework of annotation, assembly and synteny tools. It is online at http://huref.jcvi.org.
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This is a web based disease monitoring for monitoring diseases like chikungunya, malaria - reported by hospitals in a district, county, state or country. There is a reporting & analysis module and a GIS module which displays the data using google maps.
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EMMA 2 is web-based server application for management, annotation, and analysis of microarray data. It provides mapping of gene expression data onto pathway data extensible analysis and visualization functions and MAGE-ML support.
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Data and animal management software for large-scale phenotype screening Used by GNF for mouse ENU mutagenesis project. Data visualization & analysis, animal husbandry management, & automated QTL mapping. Usable as stand alone animal husbandry system.
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Structure is a framework for two-dimensional molecular visualization written in Java and based on Octet.
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Dogwood is an ontology-aware Distributed Annotation System (DAS) server framework for the integration of biological, biomedical and clinical data.
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The ORIEL workbench is a data browsing interface for REST-based information retrieval services. Originally developed for Bioinformatics applications.
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OntoCardio is an initiative to build ontologies for the legacy Cardio Database (Resource of bioinformation on cardiovascular diseases). SMI's Protege and its OWL plug-in has been adopted as the ontology construction and programming framework.