ABySS-Explorer
A sequence assembly visualization tool
Current release
ABySS-Explorer 1.3.0
Released Nov 28, 2011
Version 1.3.0 is compatible with assemblies generated from ABySS 1.3.0 or above. In addition to visualizing ABySS assemblies as graphs, it also displays contiguity statistics and plots.
More about this release…
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Get
ABySS-Explorer
for
all platforms
(2 kB)
- Java Web Start link
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Get
ABySS-Explorer
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all platforms
(6.4 MB)
- JAR file and external libraries
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Get
ABySS-Explorer
for
all platforms
(570 kB)
- User Manual
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Get
ABySS-Explorer
for
all platforms
(5.4 MB)
- test assembly (E.coli, ABySS 1.3.1, k32)
Project Description
ABySS-Explorer is an interactive Java application that employs a novel graph-based representation to display a sequence assembly and associated meta data. The tool was designed with the ABySS sequence assembler in mind and was motivated by the need to examine assembly structure, in particular contig connectivity and supporting paired-end read relationships.
Publications:
- ABySS-Explorer: Visualizing genome sequence assemblies. Nielsen CB, Jackman SD, Birol I, Jones SJM. IEEE Transactions on Visualization and Computer Graphics (Proceedings Visualization / Information Visualization 2009). 2009. 15(6):881-8. Best Paper Award (PubMed)
- De novo Transcriptome Assembly with ABySS. Birol İ, Jackman SD, Nielsen CB, Qian JQ, Varhol R, Stazyk G, Morin RD, Zhao Y, Hirst M, Schein JE, Horsman DE, Connors JM, Gascoyne RD, Marra MA and Jones SJM. Bioinformatics. 2009. 1;25(21):2872-7. (PubMed)
