Brian Nadon

Pack table generated from GAM vs. GAF drastically different

4

**1. What were you trying to do?** Get (and understand!) a packed coverage table from an alignment generated with GraphAligner against my variation graph. I have a set of reads...

Very slow performance on large sets

1

Hi, this package looks really cool and I'd love to use it for my use case. I have about 7,000 sets with about 1,000 elements each that I'm using as...

Removal of --global-alignment

3

I noticed that a few days ago, `--global-alignment` was removed. Our group was using this as a way to ensure appropriate alignment of the short reads we're using, being aware...

Receiving "warning:[XG] Loading an out-of-date XG format" with newest version of vg

3

I recently installed the newest vg version a few days ago from the vg git page on a machine I'm running the tubemaps sever on. Every time I boot it...