Kevin Jacobs

Records in intermediate VCF format

3

Apologies for jumping into this discussion late. My question is what are the records in the intermediate VCF format? e.g. given two inputs _Truth_ > 1 10 AT GT,AC 0/1...

Strict mode to fail on truncated bgzip input

1

Currently, bcftools issues a warning on truncated bgzip input. However, we've found that this "feature" allows upstream failures to pass silently in our pipeline. It would be valuable to have...

assertion error on clone

1

I have a fairly heavy VE with several dozen packages installed. When I attempt to clone, the following assertion failure is shown, where remaining==[u'2.7']. Is this a show-stopper or can...

Human self-alignments?

2

Does `last` have the ability to efficiently compute self-alignments? `lastz` has a mode specifically for this, but I was hoping to be able to replicate that more rapidly with `last`.