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Hi,
I've just recently discovered Bifrost and it sounds like a great tool for fast homology search as evidenced by the paper presenting BlastFrost. I'd love to start using both, however, I'm runnin…
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The `KBestHaplotypeFinder` can be generified to handle both `SeqGraphs` *and* de Bruijn graphs.
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We need to implement a basic de-bruijn graph type, along with constructors and basic manipulation methods.
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Hi,
first of all, thanks for developing SPAdes and SPAligner! I would like to use SPAligner to align long nanopore reads to a graph. The graph was produced by a custom tool that finds overlaps betw…
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Dear Charlotte Darby, Ian Fiddes and Patrick Marks :
I am trying to run scHLAcount on my own 10X data . It immediately encounters a crash .
Here is the crash report
```
name = 'sc_hla_count'
oper…
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Hello,
I am using the scHLAcount binary from [here](https://github.com/10XGenomics/scHLAcount/issues/5#issuecomment-533662612).
Here is the command and error message.
```shell
$ ANNODIR=/hom…
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I'm using this CSL file: http://www.zotero.org/styles/genome-research. It results in all paper titles being converted to sentence case, that is, all capital letters except the first are changed to low…
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I will start with a simple case: compact de Bruijng graph (cDBG). We can construct a cDBG for GRCh38 and keep chromosome paths (more exactly walks). This is a lossless representation of GRCh38, but wi…
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Hi guys,
May be I misunderstood something, but I think there could be a potential bug in the debruijn graph generation with super repetitive sequence. Imagine the following case:
```
AAAAATAAAA…