Scientific software for virus DNA sequencing and assembly.

Project Overview

Elvira is a set of tools and procedures designed for high throughput assembly of small genomes such as viruses. The name Elvira stands for Executive for Large-scale VIRal Assembly. Elvira is particularly suitable in situations where any of the following occur:

  1. Sequences must be individually trimmed against specific primers.
  2. Sequences must be trimmed against degenerate primers.
  3. Assemblies need to be explicitly partitioned based on sequence origin.
The Elvira package includes some well-known components, including
  1. Elvira, the genome assembly pipeline for unix.
  2. Lemur, the element tracking and manipulation web app.
  3. GLK, the database schema and associated perl module.

This software was developed at TIGR where it contributed to the sequencing and publication of thousands of viral genomes. This software makes use of the AMOS package of genome assembly tools. This software uses perl, PHP, and AJAX.

Developer Resources

This software was developed at The Institute for Genomic Research (TIGR) with financial assistance from the Microbial Sequencing Centers (MSC), part of the National Institute of Allergy and Infectious Disease (NIAID) at the National Insitutes of Health (NIH). The source is hosted by SourceForge.

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