Erik Garrison
In the end, it's just a CMakeLists.txt. It's very helpful when integrating this into other projects.
Copy pasting code is not an ideal situation. I'd like to keep things organized by referring to a repository and commit or tag when building code. I think others have...
I think the many PRs about this show that many people expect this project to provide a build function that produces a library that can be linked into another application....
Are you able to build freebayes standalone? On Tue, Jan 22, 2019, 20:55 Peter Waltman I've tried compiling speedseq on 2 separate machines, and in both cases, > the compilation...
Why not convert the files first? I think you can even stream them into bwa mem.
Ideally it would match what's in spoa. It records the walks made by the sequences through the graph as P lines. Should be straightforward if you're making the MSA. On...
Hey! This looks great. Here's one of the graphs I made with it. ``` abpoa ~/HLA-zoo/seqs/DRB1-3123.fa -r 4 >DRB1-3123.abpoa.gfa ``` In Bandage:  This is the view of the graph...
That sounds really useful. Limitations on the length of the POA length cause a lot of problems. What kind of procedure are you using for the seeding? On Sat, May...
How do you choose the reference sequence for the seeding? On Sun, May 16, 2021, 07:43 Yan Gao ***@***.***> wrote: > The seeding step is actually very simple. > I...
That's very pragmatic. Other strategies might be more sensitive, but could have much higher performance costs. If we can order the input sequences as they would sit in a neighbor...