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Old 10-02-2013, 07:31 AM   #1
d_t_nguyen
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Location: Hanoi, Vietnam

Join Date: Jun 2013
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Default Variant calling from Trios Data

Dear all,
We have a trios (father:30x, mother:30x, and son:30x), and want to do snp calling, short indel calling and structural variation calling.

We find triosCaller is good for SNP calling, however, it does not work for indels and structural variations.

Do you have any suggestions for indel calling and structural variation calling for trios data.
Thanks a lot indeed,
Nguyen
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Old 10-25-2013, 01:33 PM   #2
m_two
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Breakdancer, SquareDancer, CREST, Pindel, Varscan, and GATK

http://tvap.genome.wustl.edu/

http://www.broadinstitute.org/gatk/download
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