CLEVER

Application data
Created by	Tobias Marschall
Biological application domain(s)	Genomics, Structural variation, Copy number estimation
Technology	Any, Illumina
Created at	CWI Amsterdam
Maintained?	Yes
Input format(s)	BAM
Output format(s)	Tab separated
Software features	command line
Programming language(s)	C++, Python
Software libraries	BamTools, Boost
Licence	GPLv3
Operating system(s)	any
Contact:	clever-toolkit@googlegroups.com

Summary: CLEVER is a tool to discover structural variations such as (larger) insertions and deletions in genomes from paired-end sequencing reads.

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Description

CLEVER (CLique Enumerating Variant findER) is an internal segment size based approach, which organizes all reads (including concordant ones) into a read alignment graph where max-cliques represent maximal contradiction-free groups of alignments. A specifically engineered algorithm then enumerates all max-cliques and statistically evaluates them for their potential to reflect insertions or deletions (indels).

Links

• CLEVER Homepage [ edit link ]
• CLEVER Publication full text [ edit link ]

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References

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