Yan Gao
Yan Gao
Thanks for the suggestion! That should not be very hard to do, I will give it a try!
Hi Erik, I just updated the abPOA repo, please try out the GFA format output with parameter '-r4'. Let me know if this works for you! Yan
Hi @ekg , I added a minimizer-based seeding in the latest version of abPOA ([v1.2.0](https://github.com/yangao07/abPOA/releases/tag/v1.2.0)). It can reduce the memory usage for very long input sequence, e.g this DRB1. Also,...
The seeding step is actually very simple. I collected all the minimizer hits between two sequences based on the input order. Then, I applied a similar chaining strategy as used...
Based on the input order, the i-th sequence is the reference for the (i+1)-th.
The longest one is actually just this DRB1.
That will be great. Curious what will happen if we feed abPOA with that long sequences.
Just updated to [v1.2.1](https://github.com/yangao07/abPOA/releases/tag/v1.2.1). Removes a redundant and very time-consuming sorting step.
A quick fix has just been pushed. Try it out @glennhickey
You are right. The diploid mode is not working very well as I expected, so I did not add it to the release of abPOA. Right now, it only can...