input a single .vcf or are .BAMs the only option?

[Boo Guy]

Hi 

I am new to Switch and I wanted to check that it was not possible to input a single .vcf file with many samples rather than a set of indexed .BAM files (one for each sample)?

Second, I want to check  that the output .vcf file  with the phased genotypes use sthe format 0/1. and not 0|1 (i.e. that "|" is not used).

Thanks 

Guy

Dr R. G. Reeves

Department of Evolutionary Genetics,
Max Planck Institute for Evolutionary Biology