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Hello,
I'm trying to think of a way that I can use this tool to detect variants that occur more frequently in one group than another. For example, suppose I have 50 samples sequenced to 20X coverag…
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I was wondering about the following test failures/skips. The modified version of Jellyfish2 installed correctly without error but when I ran make check some tests were skipped/failed which should not …
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Hi,
Firstly thank you for creating such a great resource. I have two questions (using v1.5):
1) I am trying to genotype SVs using identified by manta (only SVs), when following the steps and usi…
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kDataframe PHMAP doesnt pass the test cases.
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Hi, thanks for creating such a useful tool!
Apologies if I've missed this in the documentation. I wanted to clarify how krakenuniq handles multiple databases when run as
```
krakenuniq --db HO…
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Currently our main indexing structure, which maps kmer hashes to their PRGs and locations, is a `std::unordered_map`. There are better alternatives, like `boost::unordered_flat_map` (a review here: ht…
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Hi Marcus,
Your tool is the only one that allows you to do an analysis per read, it's very useful! Thanks for this.
I have a sequence with a modification detected by the model_sample_compare metho…
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Hi,
I have observed that some variants located at the ends of chromosomes seem to be unsuccessful in genotyping from all samples in my dataset. If this phenomenon is normal? Could you please provide…
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Be able to generate both length statistics (N50, total, longest, shortest, etc), and actual sequences for at least
* mRNA
* protein
* pre-mRNA
* introns
* exons
and break the above down into a…
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Today I upgraded from lighter 1.0.7 to 1.1.1 and I first noticed a problem when 1.1.1 was outputting different number of reads in the two output files, and then noticed it was also passing far fewer r…