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Hi, I am trying to use phylosift to characterize some extracted genomes. First I tested the "test data" and it worked well. Then I proceed to analyze a set of bins in fasta format and i got the follow…
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In bench.c, we make sequences a and b identical sequences and both of length 10000. And we then add a statement
printf("m(%lld)\n", m);
after line 3674 of file gaba.c.
When we compile and run b…
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Dear Dr. RUAN,
Thank you for providing this wonderful assembler.
I am wondering about the meaning of the parameter "-m" which is called "min match" in the documentation. To my understanding, whe…
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Hi!
I have a question regarding handling of sequences with different length.
I usually align sequences with a fixed identity cutoff of 97% and, depending on the sample, different read length. `v…
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I finally found a small reproducible example of an alignment problem.
To reproduce on this input FASTA, [fail_smoothxg_block_3055.fa.txt](https://github.com/yangao07/abPOA/files/5334048/fail_smooth…
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Hi, again (sorry for the nuisance).
I must have been doing something wrong. I'm getting many alignments for which Scrooge reports an improbably high distance-error.
I got an example (if it help…
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ERROR: Could not build wheels for diamond4py, which is required to install pyproject.toml-based projects
```Collecting diamond4py
Using cached diamond4py-0.0.5.tar.gz (1.8 MB)
Installing bu…
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Hey @Daniel-Liu-c0deb0t!
I have a bunch of sequences (most 20nts, few 27nts) which I want to find in a lot (millions) of longer sequences.
Initially I use a k-mer index, and find matching pairs…
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@jeizenga maybe you have some insight into this. I've spent the past day trying to figure it out from the side of the mapper itself and I'm now convinced that the problem is in the realm of the banded…
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Good morning!
I would like to ask if you can provide a more explicit explanation about what "wtpoa-cns" does.
I've been looking around in literature and internet and a I've only been able to find …