1.
Nucleic Acids Res
; 41(3): e46, 2013 Feb 01.
Article
in English
| MEDLINE
| ID: mdl-23221639
ABSTRACT
Insertion and deletion polymorphisms (indels) are an important source of genomic variation in plant and animal genomes, but accurate genotyping from low-coverage and exome next-generation sequence data remains challenging. We introduce an efficient population clustering algorithm for diploids and polyploids which was tested on a dataset of 2000 exomes. Compared with existing methods, we report a 4-fold reduction in overall indel genotype error rates with a 9-fold reduction in low coverage regions.