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Hi,
I'm running with MBG 1.0.10, but with verkko 1.0 beta 2 since the 1.0 release haven't been updated in Conda yet.
```
removed 1 tips
try resolve k=1601, replaced 2 nodes with 5 nodes, unitig…
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Hi,
Is there a way to generate a manhattan plot (preferably in R or python) from the output of kmer GWAS using pyseer without using phandango? I want to see how the hits line up along the genome.
…
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Hi,
I am using Arabidopsis thaliana data for testing with default parameter. I can run the Ecoli data successfully. The public data is 140x HiFi (22Gb, reads N50 15kb) and 115x ONT (26G, N50 82kb) …
baozg updated
2 years ago
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Hello,
there is a way to "map" or "annotate" the snps provided by pyseer in terms of position in the different contigs as it is done for the unitigs?
Thank you in advance :)
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Hello,
I am having problems with controlling for the population stuctre in my sample set and I was wodnering if I can get some help? I am not sure when the QQplots are good enough in order to be a…
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Hello,
Thank you for this tool.
I have tried running MBG on several datasets, and several machines, but I keep running into the same error:
```
MBG bioconda 1.0.6
Parameters: k=201,w=171,a=…
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Hello,
I am trying to use this software to assemble simulated genomes as part of a larger project where I am benchmarking different hybrid assembly methods. I was intrigued by Longstitch's method o…
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I extracted the local hifi and ont reads from a length of ~12Mb region, then run the verkko with default parameters. However, I obtain more than 100Mb assembled sequence, and it far exceed the length …
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Is it possible to get (1) the gfa-formatted graph and (2) the presence-absence information on which unitig carries which labels without any query? I would like to do some "network analysis" on a pange…
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Hi,
_Preface: So as these are not real reads, I am not sure about whether this is a bug or merely a factor of simulation._
I simulated 150x Illumina read coverage (I am not sure the details of t…