BLAST Ring Image Generator

4.7 Stars (3)
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Description

BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.

Please cite the BRIG paper if BRIG is used to generate figures for publications: NF Alikhan, NK Petty, NL Ben Zakour, SA Beatson (2011) BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons, BMC Genomics, 12:402. PMID: 21824423

BLAST Ring Image Generator Web Site

Features

  • Images show similarity between a central reference sequence and other sequences as concentric rings.
  • BRIG will perform all BLAST comparisons and file parsing automatically via a simple GUI.
  • Contig boundaries and read coverage can be displayed for draft genomes; customized graphs and annotations can be displayed.
  • Using a user-defined set of genes as input, BRIG can display gene presence, absence, truncation or sequence variation in a set of complete genomes, draft genomes or even raw, unassembled sequence data.
  • BRIG also accepts SAM-formatted read-mapping files enabling genomic regions present in unassembled sequence data from multiple samples to be compared simultaneously

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User Reviews

  • swth
    1 of 5 2 of 5 3 of 5 4 of 5 5 of 5

    Thanks for the nice program. I have a problem when mapping coverage Graphs. When CGview parses the XML file first I encountered an out of memory error: "GC overhead limit" which I avoided with -XX:-UseGCOverheadLimit but then instead i got the memory error "Java heap space". I want to run coverage mappings for 20 genomes of ~6,5 Mbp so it is quite a lot of data to render, but I have tried allocating more memory (15gb) and still get the error. Do you have a suggestion for solcing the problem? I'm running BRIG on a UNIX server, tunnelling java.

    Posted 06/27/2014
  • josearmstrong
    1 of 5 2 of 5 3 of 5 4 of 5 5 of 5

    Thanks for software and updates.

    Posted 06/26/2013
  • oid-2861925
    1 of 5 2 of 5 3 of 5 4 of 5 5 of 5

    Great interface and easy to use.

    Posted 12/08/2010
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Additional Project Details

Intended Audience

Science/Research

Programming Language

Java

Registered

2010-06-10
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