Ilia Minkin
Ilia Minkin
Hi Joel, Your suggestions worked, thanks a lot!
Getting the same error while running on 15 small genomes. A the time I started the cactusGraph, there were no ktsererver processes, I didn't use the folder "./work6/temp123" as a...
Any comments?
I recloned and rebuilt but the error persists.
@peterjc thank you! Your example seems to work as expected. However, in my use case, I need to get the coordinates of blocks returned by get_spliced. You also seem to...
My use case is the following. I have a range (sequence, start, end, strand) and I want to know where those coordinates map to another sequence, start & end positions,...
Hi, This sounds like a bug. What is the dataset you are trying to align? Number of genomes, their size and type.
Hi @jianshu93, Yes, SibeliaZ should be fine in this case. Moreover, we did an experiment where we simulated bacterial datasets with different degrees of divergence, and alignment recall was >...
Yes, I built chr4.idx on the same machine. The file is a subset I extracted from another MAF https://bds.mpi-cbg.de/hillerlab/CESAR/realignedMaf_100way.maf, which was published as supplementary data for [this paper](https://academic.oup.com/nar/article/44/11/e103/2468292). I will...
If I try to index the whole file, I get the following error: > Traceback (most recent call last): > File "reproduce.py", line 4, in > idx = MafIO.MafIndex("19way.idx", "realignedMaf_100way.maf",...