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Robert J. Gifford edited this page Nov 30, 2024
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Welcome to the RABV-GLUE User Guide!
Warning
This guide is under construction
RABV-GLUE is a GLUE project developed to support comparative genomic analysis of rabies virus (RABV).
RABV-GLUE leverages the GLUE software framework - a flexible, extensible, and standardized platform for analyzing viral genomes. By integrating sequences, annotations, and relational data into a comprehensive, extensible system, RABV-GLUE facilitates computational analysis, reducing the need for manual data handling and enabling researchers to focus on scientific discovery.
- Comprehensive Genomic Database: RABV-GLUE provides a robust foundation for comparative genomics research. It integrates a curated collection of hepadnavirus sequences from all known species, and can be extended to incorporate sequences from endogenous hepadnaviruses.
- Standardized Data Formats: All genomic data, including sequences, alignments, and annotations, are standardized, ensuring consistency and interoperability across analyses.
- Relational Data Structure: The GLUE framework links sequences with complex metadata, allowing for rich, context-driven queries and analyses while minimizing manual pre-processing of datasets.
- Customizable Comparative Genomics Tools: Researchers can perform customizable genomic analyses, such as evolutionary studies, phylogenetic reconstruction, and genome feature comparisons, tailored to their specific research questions.
- Extensible Platform: The resource is highly extensible, allowing users to add their own data, annotations, and custom analysis tools, seamlessly integrating them into the core system.
- Reproducible Workflows: Designed to ensure reproducibility, RABV-GLUE enables users to save and share their analyses, allowing for collaboration and transparent research practices.
To begin using RABV-GLUE for comparative genomic analysis, follow these steps:
- Install GLUE: First, install the GLUE software framework, which forms the backbone of RABV-GLUE. You can either opt for a native installation or use Docker, depending on your preferences and system setup.
- Download and Import the Core Project: Once GLUE is installed, download the RABV-GLUE core project, which contains the essential hepadnavirus sequences, annotations, and alignment data. After downloading, import the core project into GLUE to start working with the data.
- Optionally Build Project Extensions: RABV-GLUE can be extended with additional datasets and analysis tools. For example, you can add the RABV-GLUE-EVE extension, which integrates endogenous viral element (EVE) sequences derived from hepadnaviruses, enabling the exploration of viral elements embedded in host genomes.