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Hello,
I've got a question regarding the argument `--maxaccepts` of the `vsearch` command `--cluster_fast`:
The manpage states the following about `maxaccepts`:
"_The search process sorts tar…
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Hi,
I have met with another ignoring error, here is the log:
0.982908 k-mers per position
14994 DB matches per sequence
8 overflows
0 queries produce too many hits (truncated result)
58 sequen…
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Hi ,
I am trying to use below dataset shared earlier but it does not has train_in_3_mers key in it.
https://cuhko365-my.sharepoint.com/:u:/g/personal/221041009_link_cuhk_edu_cn/EccXeRSaTDJHjBDr…
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$P$(observe k events) =
Here the parameter $\lambda = \frac{M}{S}$ is the expected number of hashes
for $M$ k-mers at a scaled of $S$.
$P$(k hashes for M k-mers with scaled S) = ${\exp(-M /…
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Hi again Dr. Rhie,
I'm having a great time using merqury to asses quality and completeness of different versions of our assembly. It's an awesome tool and it is allowing us to make more informed dec…
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After comparing two genomes to obtain a large number of unique k-mers, how to quickly find the position of k-mers on the genome? Currently, I use software such as `bwa` and `fuzznucl`, but I feel it i…
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Could the number of k-mers in the query be included in the output so the user can calculate the percentage of the query in each dataset (or provide the percentage as well)?
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Dear developers,
this really is not a typical "issue" but rather an "enhancement"...
Would it be possible to add the amount of unique k-mers for a specific read classified into the kraken output…
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synopsis: When running FastK with -k set 32 or less, I'm seeing segfaults.
Specifically, I've seen this with one particular input file (the blue whale assembly) and k in {20,26,31,32}.
Details:
…
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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…