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Hi, I am having issues generating kmers for all chromosomes included in reference hg19. I always get only kmers for chr10. Can you please think of any solution to this problem? Or why is it happening?…
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I'm running kmergwas through kmergwasflow, although this seems like an issue with kmergwas so I'm asking here.
During the "associate_kmers" step it is creating all the permutations, but is not cre…
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A common use of kmer counters is to dump kmers and their counts to a text file that can be used in other tools. To do this we need to track hash to kmer pairs.
Suggested solution:
Init `KmerCoun…
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Hi, @eblerjana
I found that several samples's peak is wrong according the pangenie log. So would you mind teliing what's the influence of these peak? Is there any way to set peak?
Here is a ex…
baozg updated
2 weeks ago
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Hello, I encountered an error of `Error 137` (see log output below). Do you have any insights what might cause the issue? Thanks!
```
...
Processed 70000000 kmers.
Processed 70100000 kmers.
Pro…
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so I just found out about this neat in-development [Kmers.jl](https://github.com/BioJulia/Kmers.jl) package. It has this Kmer type, a very intricate type ecosystem, and fancy functions.
I did a mic…
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Hi,
I am trying to use the SubPhaser to phase the subgenomes of my species. However, after filtering differential kmers, no differential kmers were remained. I used parameter of this `-k 15 -q 50 -…
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The following functionality needs to be added:
- [ ] Standardize naming scheme and file form for resistance kmer "db" file
- [ ] New section to configuration file for resistance kmer file
- [ ] U…
ar0ch updated
4 years ago
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Hello! Thanks for your powerful tool!
I have a question about the detected site, is there any way to know that the modification type? Let's say we have several NNGNN kmers, then can we know whethe…
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Hi,
I have noticed that kmc tool (latest release) generates wrong k-mers for long (>= 32) reads and short reads (~5) as well.
For example:
AACCACAGATATCTTTAACCAGGATACCATAGAC
the following sh…