Yeast variant calling with bcbio next-gen pipeline

We resequenced 49 cones of the Saccharomyces cerevisiae strain BY4742 and compared SNP and small INDEL calling using 5 variant callers or using a consensus calling method, requiring e.g. 3 of 5 callers to identify the variant before passing the VCF file to the variant effect predictor for annotation.We are interested in mutation/evolution within different parts of yeast colonies as colonies age.