Vecuum

Contamination-induced false variant caller

Brought to you by: junhokim

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Last Update: 2016-09-20

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02-08-16 A new version of Vecuum 1.0.1 has been uploaded.

Kim J et al, "Vecuum: identification and filtration of false somatic variants caused by recombinant vector contamination", Bioinformatics (2016): btw383.
http://bioinformatics.oxfordjournals.org/content/early/2016/07/12/bioinformatics.btw383

Vecuum is a Java based variant caller designed for detecting contamination-induced point mutations from hybrid-capture-based genome sequencing data (e.g. WGS, WES, targeted capture, etc). Vecuum is specialized for identifying false variants caused by recombinant vector contamination, however, can be applied to detect spurious calls for various external contaminants such as xenogeneic genomes, mRNA (cDNA) libraries, or even pseudogenes.
The important features of Vecuum are:

• Estimation of the genomic location of vector-contaminated regions
• Identification of false variants originated from vector inserts

Project Samples

Overall Vecuum workflow

Vecuum commands

Vecuum output for estimated insert regions

Sample output for called false variants

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Registered

2015-12-09

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