MANTA-100 allow for close variants during assembly
MANTA-100 add unit test for limit_ref_length
MANTA-100 add multiple assembly QC flank lengths to prevent false negatives
MANTA-99 first steps
MANTA-99 first complete depth filter impl
update cl
MANTA-99 estimate depth from normal only
MANTA-99 final fixes
MANTA-102 add initial high MQ0 call filter
update cl
MANTA-102 final adjustment
MANTA-102 adjust MQ0 filter based on complete test feedback
wrap up next release
close gcc 4.1 warning
MANTA-103 proposed fix
change default build type
cleanup user guide and script usage
fix msg typo
fix vcf header typo
improve vcf comparison script