Erik Garrison
Have you considered using a perfect minimal hash function (e.g. bbhash) to reduce your index size?
I'm curious what would be required to support an interval tree in the PGM. I see that the type K used in the index must be numeric. Perhaps this could...
Does siren support FoxDot code?
Starting from VCFs that have phased haplotypes, what steps should we follow to build a GFA in which the haplotypes are repressented as paths? It seems that we might be...
In https://github.com/ekg/freebayes/issues/419 @tseemann [asked if vg was ready for bacterial pangenomics](https://github.com/ekg/freebayes/issues/419#issuecomment-377646948). My response better fits here so I've copied it over: @tseemann you already can use vg on large pools...
In freebayes, I've found an issue where an empty quality string ("*" in SAM) is translated into a string of null characters. Is there a way to check if the...
How should one cite snippy?
I'm curious if miniasm works for the assembly of multiple high-quality sequences. For instance, the GRCh38 ALTs that are being used in the graph challenge in the ga4gh. So, we...
We are working on generating sequence graphs for use as the reference system in vg. I'm completing a first pass at bluntifying the overlap graph that can be pulled out...
I ran into a change in GCC behavior in 10.1.0. Apparently, it's not possible to apply `std::stoull` to a regular `std::string`, and now `std::wstring` is required. For instance ```c++ #include...