Multisample VCFs; no read cleaning; test data available

lskatz released this 31 Dec 20:02

· 658 commits to master since this release

c255954

Removed cleaning options -- users must clean reads themselves
Varscan has been added and is the default SNP caller
Using pooled VCF multisample file for the basis of the MSA/phylogeny
Needs newest samtools/bcftools
Can download test sets
Underscores allowed in the ref genome

Assets 2