Nephele: genotyping via complete composition vectors and MapReduce.

ABSTRACT:

Background

Current sequencing technology makes it practical to sequence many samples of a given organism, raising new challenges for the processing and interpretation of large genomics data sets with associated metadata. Traditional computational phylogenetic methods are ideal for studying the evolution of gene/protein families and using those to infer the evolution of an organism, but are less than ideal for the study of the whole organism mainly due to the presence of insertions/deletions/rearrangements. These methods provide the researcher with the ability to group a set of samples into distinct genotypic groups based on sequence similarity, which can then be associated with metadata, such as host information, pathogenicity, and time or location of occurrence. Genotyping is crit

SUBMITTER: Colosimo ME 

PROVIDER: S-EPMC3182884 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature